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This page was generated on 2023-06-06 11:00:26 -0000 (Tue, 06 Jun 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.3.0 (2023-04-21) -- "Already Tomorrow" 4366
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CHECK results for biodbChebi on kunpeng2


To the developers/maintainers of the biodbChebi package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information.

- Use the following Renviron settings to reproduce errors and warnings.

Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details.

raw results

Package 191/2199HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.7.0  (landing page)
Pierrick Roger
Snapshot Date: 2023-06-05 06:35:06 -0000 (Mon, 05 Jun 2023)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: 8404aa9
git_last_commit_date: 2023-04-25 15:32:59 -0000 (Tue, 25 Apr 2023)
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    OK  

Summary

Package: biodbChebi
Version: 1.7.0
Command: /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings biodbChebi_1.7.0.tar.gz
StartedAt: 2023-06-05 18:15:47 -0000 (Mon, 05 Jun 2023)
EndedAt: 2023-06-05 18:17:25 -0000 (Mon, 05 Jun 2023)
EllapsedTime: 97.8 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings biodbChebi_1.7.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/biodbChebi.Rcheck’
* using R version 4.3.0 (2023-04-21)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
    gcc (GCC) 10.3.1
    GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.7.0’
* 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 ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... 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 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 ...
  ‘biodbChebi.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R-4.3.0/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-4.3.0/site-library’
* installing *source* package ‘biodbChebi’ ...
** using staged installation
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.3.0 (2023-04-21) -- "Already Tomorrow"
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(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2023-06-05 18:16:40.391][biodb::testContext]
biodb.INFO [2023-06-05 18:16:40.394][biodb::testContext] ********************************************************************************
biodb.INFO [2023-06-05 18:16:40.395][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-06-05 18:16:40.397][biodb::testContext] ********************************************************************************
biodb.INFO [2023-06-05 18:16:40.398][biodb::testContext]
biodb.INFO [2023-06-05 18:16:40.418][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.9.0.
biodb.DEBUG[2023-06-05 18:16:40.420][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-06-05 18:16:40.429][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-06-05 18:16:40.431][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-06-05 18:16:40.433][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-06-05 18:16:40.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.438][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-06-05 18:16:40.465][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-06-05 18:16:40.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.470][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-06-05 18:16:40.472][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-06-05 18:16:40.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.477][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-06-05 18:16:40.478][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-06-05 18:16:40.480][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-06-05 18:16:40.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.485][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-06-05 18:16:40.486][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-06-05 18:16:40.488][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-06-05 18:16:40.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.493][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-06-05 18:16:40.494][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-06-05 18:16:40.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.498][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[2023-06-05 18:16:40.500][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-06-05 18:16:40.501][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-06-05 18:16:40.502][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-06-05 18:16:40.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.508][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-06-05 18:16:40.509][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-06-05 18:16:40.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.514][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-06-05 18:16:40.516][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-06-05 18:16:40.517][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-06-05 18:16:40.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.522][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-06-05 18:16:40.524][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-06-05 18:16:40.525][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-06-05 18:16:40.526][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-06-05 18:16:40.528][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-06-05 18:16:40.529][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-06-05 18:16:40.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.534][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-06-05 18:16:40.536][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-06-05 18:16:40.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.541][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-06-05 18:16:40.543][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-06-05 18:16:40.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.548][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-06-05 18:16:40.549][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-06-05 18:16:40.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.554][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-06-05 18:16:40.556][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-06-05 18:16:40.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.561][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-06-05 18:16:40.562][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-06-05 18:16:40.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.568][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-06-05 18:16:40.569][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-06-05 18:16:40.574][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-06-05 18:16:40.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.579][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-06-05 18:16:40.581][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-06-05 18:16:40.582][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-06-05 18:16:40.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.591][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-06-05 18:16:40.639][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:40.675][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-06-05 18:16:40.676][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.678][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:16:40.679][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.680][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:16:40.682][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:40.683][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:16:40.684][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-06-05 18:16:40.686][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:16:40.687][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.689][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-06-05 18:16:40.690][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:16:40.691][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.693][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.694][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-06-05 18:16:40.694][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-06-05 18:16:40.694][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-06-05 18:16:40.694][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-06-05 18:16:40.694][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-06-05 18:16:40.695][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:16:40.697][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:16:40.698][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:16:40.699][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:16:40.701][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:16:40.702][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:16:40.703][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:16:40.705][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.706][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:16:40.707][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:16:40.708][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:40.710][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.711][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-06-05 18:16:40.714][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:40.715][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-06-05 18:16:40.717][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.718][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:16:40.719][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.721][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:16:40.722][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:40.724][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:16:40.725][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-06-05 18:16:40.726][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:16:40.728][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.729][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-06-05 18:16:40.730][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:16:40.732][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.733][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.735][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-06-05 18:16:40.735][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-06-05 18:16:40.735][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-06-05 18:16:40.735][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-06-05 18:16:40.735][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-06-05 18:16:40.736][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:16:40.737][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:16:40.739][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:16:40.740][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:16:40.741][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:16:40.743][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:16:40.744][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:16:40.745][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.747][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:16:40.748][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:16:40.749][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:40.750][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.752][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-06-05 18:16:40.754][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.756][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-06-05 18:16:40.757][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.758][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:16:40.760][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.761][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:16:40.762][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:40.764][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:16:40.765][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-06-05 18:16:40.766][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:16:40.768][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:40.769][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-06-05 18:16:40.770][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:16:40.772][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.773][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.774][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.776][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:16:40.777][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:16:40.778][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:16:40.780][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:16:40.781][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:16:40.782][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:16:40.783][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:16:40.785][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.786][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:16:40.787][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:16:40.788][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:40.790][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.791][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-06-05 18:16:40.794][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.795][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-06-05 18:16:40.796][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.798][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:16:40.799][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.800][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:16:40.801][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:40.803][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:16:40.804][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-06-05 18:16:40.805][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:16:40.807][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:40.808][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-06-05 18:16:40.809][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:16:40.811][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.812][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:40.813][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.815][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:16:40.816][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:16:40.817][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:16:40.818][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:16:40.820][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:16:40.821][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:16:40.822][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:16:40.824][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.825][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:16:40.826][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:16:40.827][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:40.829][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:16:40.834][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-06-05 18:16:40.835][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.896][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[2023-06-05 18:16:40.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:40.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:40.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:40.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:40.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:40.939][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-06-05 18:16:40.945][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-06-05 18:16:40.946][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-06-05 18:16:40.948][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-06-05 18:16:40.950][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-06-05 18:16:40.952][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-06-05 18:16:40.954][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-06-05 18:16:40.956][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-06-05 18:16:40.958][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-06-05 18:16:40.959][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-06-05 18:16:40.961][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-06-05 18:16:40.963][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-06-05 18:16:40.965][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-06-05 18:16:40.967][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-06-05 18:16:40.969][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-06-05 18:16:40.970][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-06-05 18:16:40.972][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-06-05 18:16:40.974][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-06-05 18:16:40.976][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-06-05 18:16:40.978][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-06-05 18:16:40.980][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-06-05 18:16:40.981][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-06-05 18:16:40.983][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-06-05 18:16:40.985][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-06-05 18:16:40.987][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-06-05 18:16:40.989][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-06-05 18:16:40.991][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-06-05 18:16:40.992][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-06-05 18:16:40.994][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-06-05 18:16:40.996][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-06-05 18:16:40.998][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-06-05 18:16:41.008][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-06-05 18:16:41.010][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-06-05 18:16:41.012][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-06-05 18:16:41.014][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-06-05 18:16:41.016][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-06-05 18:16:41.018][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-06-05 18:16:41.020][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-06-05 18:16:41.021][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-06-05 18:16:41.023][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-06-05 18:16:41.025][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-06-05 18:16:41.027][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-06-05 18:16:41.029][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-06-05 18:16:41.031][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-06-05 18:16:41.033][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-06-05 18:16:41.035][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-06-05 18:16:41.037][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-06-05 18:16:41.039][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-06-05 18:16:41.041][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-06-05 18:16:41.043][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-06-05 18:16:41.045][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-06-05 18:16:41.047][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-06-05 18:16:41.049][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-06-05 18:16:41.051][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-06-05 18:16:41.053][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-06-05 18:16:41.055][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-06-05 18:16:41.057][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-06-05 18:16:41.059][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-06-05 18:16:41.061][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-06-05 18:16:41.063][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-06-05 18:16:41.065][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-06-05 18:16:41.067][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-06-05 18:16:41.069][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-06-05 18:16:41.071][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-06-05 18:16:41.073][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-06-05 18:16:41.075][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-06-05 18:16:41.077][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-06-05 18:16:41.079][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-06-05 18:16:41.081][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-06-05 18:16:41.083][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-06-05 18:16:41.085][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-06-05 18:16:41.087][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-06-05 18:16:41.089][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-06-05 18:16:41.091][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-06-05 18:16:41.093][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-06-05 18:16:41.095][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-06-05 18:16:41.097][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-06-05 18:16:41.098][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-06-05 18:16:41.100][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-06-05 18:16:41.102][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-06-05 18:16:41.104][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-06-05 18:16:41.106][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-06-05 18:16:41.108][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-06-05 18:16:41.116][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-06-05 18:16:41.118][initialize] This is biodb version 1.9.0.
biodb.DEBUG[2023-06-05 18:16:41.122][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-06-05 18:16:41.124][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.126][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.198][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[2023-06-05 18:16:41.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.223][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[2023-06-05 18:16:41.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:16:41.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:41.274][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-06-05 18:16:41.287][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-06-05 18:16:41.290][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:41.291][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-06-05 18:16:41.292][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:41.294][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:16:41.295][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:41.296][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:16:41.298][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:41.299][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-06-05 18:16:41.300][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-06-05 18:16:41.302][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:16:41.303][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:41.304][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-06-05 18:16:41.306][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:16:41.307][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-06-05 18:16:41.307][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-06-05 18:16:41.307][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-06-05 18:16:41.307][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-06-05 18:16:41.307][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-06-05 18:16:41.307][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-06-05 18:16:41.307][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-06-05 18:16:41.307][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-06-05 18:16:41.307][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-06-05 18:16:41.307][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-06-05 18:16:41.307][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-06-05 18:16:41.308][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-06-05 18:16:41.310][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-06-05 18:16:41.310][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-06-05 18:16:41.310][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-06-05 18:16:41.311][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-06-05 18:16:41.312][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:16:41.313][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:16:41.315][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:16:41.316][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:16:41.317][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:16:41.318][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:16:41.320][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-06-05 18:16:41.320][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-06-05 18:16:41.321][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:16:41.322][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:16:41.323][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-06-05 18:16:41.325][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-06-05 18:16:41.325][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-06-05 18:16:41.333][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-06-05 18:16:41.344][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-06-05 18:16:41.346][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-06-05 18:16:41.348][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-06-05 18:16:41.350][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-06-05 18:16:41.352][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-06-05 18:16:41.384][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-06-05 18:16:41.386][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-06-05 18:16:41.391][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-06-05 18:16:41.397][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-06-05 18:16:41.402][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-06-05 18:16:41.403][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-06-05 18:16:41.405][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-06-05 18:16:41.407][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-06-05 18:16:41.428][biodb::testThat]
biodb.INFO [2023-06-05 18:16:41.430][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2023-06-05 18:16:41.431][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:16:41.432][biodb::testThat]
biodb.TRACE[2023-06-05 18:16:41.438][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.3.0/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2023-06-05 18:16:41.444][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:16:41.449][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:16:41.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:41.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:41.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:41.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:41.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:41.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:41.483][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:16:41.495][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:41.497][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:41.498][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.500][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:41.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:41.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.532][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:41.533][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:41.535][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.536][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.577][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:41.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:41.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.586][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:41.588][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:41.589][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.590][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.592][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:41.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:41.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.601][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:41.603][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:41.604][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.606][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.608][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:41.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:41.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.617][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:41.619][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:41.620][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.621][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:41.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:41.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.633][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:41.635][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:41.636][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.637][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.640][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:41.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:41.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.650][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:16:41.651][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:41.653][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.654][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.657][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:16:41.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:41.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.666][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:41.668][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:41.669][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.670][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.672][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:41.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:41.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.681][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:41.683][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:41.684][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.685][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.687][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:41.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:41.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.696][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:41.698][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:41.699][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.700][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.702][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:41.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:41.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.711][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:41.712][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:41.714][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.715][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.717][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:41.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:41.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:41.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:41.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:41.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:41.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:41.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:41.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:41.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:41.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:41.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:41.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:41.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:41.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:41.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:41.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:41.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:41.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:41.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:41.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:41.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:41.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:41.846][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2023-06-05 18:16:41.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:41.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:41.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.859][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:41.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:41.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.897][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:41.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:41.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:41.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:41.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:41.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:41.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:41.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:41.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.919][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-06-05 18:16:41.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-06-05 18:16:41.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.925][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-06-05 18:16:41.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-06-05 18:16:41.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.930][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-06-05 18:16:41.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-06-05 18:16:41.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.936][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-06-05 18:16:41.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-06-05 18:16:41.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:41.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:41.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:41.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:41.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:41.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:41.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.089][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.090][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.092][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.093][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.129][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.131][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.132][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.133][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:42.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:42.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:42.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.157][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:42.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:42.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.162][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:42.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:42.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.168][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:42.170][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:42.171][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.173][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.174][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:42.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:42.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.190][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:42.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:42.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.196][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:42.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:42.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:42.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:42.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.207][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:42.209][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:42.210][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.212][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.213][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:42.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:42.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:42.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:42.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:42.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:42.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:42.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:42.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.247][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:42.248][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:42.250][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.251][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:42.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:42.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:42.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:42.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:42.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:42.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:42.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:42.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.286][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:42.288][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:42.289][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.291][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:42.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:42.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.309][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:42.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:42.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.315][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:42.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:42.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.321][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:42.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:42.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.326][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:42.328][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:42.329][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.331][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.332][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:42.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:42.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.348][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-06-05 18:16:42.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:42.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.391][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-06-05 18:16:42.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:42.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.397][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-06-05 18:16:42.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:42.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.402][ef$get] Asked field names are: n.stars.
biodb.TRACE[2023-06-05 18:16:42.404][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:42.405][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.407][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.408][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-06-05 18:16:42.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:42.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.424][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.430][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.436][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.442][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.443][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.445][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.446][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.448][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.464][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:42.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:42.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.470][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:42.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:42.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.476][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:42.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:42.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.482][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:42.483][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:42.485][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.486][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.488][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:42.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:42.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.523][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.524][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.526][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.527][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.545][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:42.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:42.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.551][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:42.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:42.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:42.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:42.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.563][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:42.564][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:42.566][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.567][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.569][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:42.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:42.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.585][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.587][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.588][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.590][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.598][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:42.600][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:42.601][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.602][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.611][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:42.612][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:42.614][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.615][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.623][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:42.625][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:42.627][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.628][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.636][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.638][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.640][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.641][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.649][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.651][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.653][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.654][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.662][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:42.664][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:42.666][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.667][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.676][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:42.677][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:42.679][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.680][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.689][ef$get] Asked field names are: n.stars.
biodb.TRACE[2023-06-05 18:16:42.690][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:42.692][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.693][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.701][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:42.703][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:42.705][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.706][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.721][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:42.723][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:42.725][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.726][ef$get] fields variable is a list.
biodb.INFO [2023-06-05 18:16:42.735][biodb::testThat]
biodb.INFO [2023-06-05 18:16:42.737][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-06-05 18:16:42.738][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:16:42.740][biodb::testThat]
biodb.DEBUG[2023-06-05 18:16:42.760][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2023-06-05 18:16:42.770][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:16:42.774][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2023-06-05 18:16:42.776][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:42.778][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2023-06-05 18:16:42.780][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:16:42.847][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:16:42.849][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:16:42.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:42.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:42.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:42.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:42.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:42.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:42.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:16:42.870][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.872][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.873][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.875][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:42.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:42.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.911][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:42.913][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:42.914][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.916][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.917][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:42.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:42.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.927][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:42.929][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:42.930][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.932][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.934][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:42.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:42.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.944][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:42.945][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:42.947][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.948][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:42.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:42.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.960][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.962][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.963][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.965][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:42.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.977][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.978][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.980][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.981][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.983][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:42.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:42.993][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:16:42.995][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:42.996][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:42.998][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.000][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:16:43.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:43.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.010][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:43.012][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:43.013][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.014][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:43.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:43.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.026][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:43.028][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:43.029][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.040][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.043][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:43.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:43.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.052][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:43.054][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:43.055][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.057][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.059][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:43.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:43.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.069][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:43.070][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:43.072][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.073][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.075][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:43.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:43.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:43.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:43.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:43.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:43.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:43.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:43.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:43.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:43.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:43.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:43.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:43.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:43.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:43.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:43.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:43.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:43.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:43.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:43.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:43.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:43.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:43.150][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2023-06-05 18:16:43.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-06-05 18:16:43.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-06-05 18:16:43.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-06-05 18:16:43.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-06-05 18:16:43.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-06-05 18:16:43.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-06-05 18:16:43.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-06-05 18:16:43.178][biodb::testThat]
biodb.INFO [2023-06-05 18:16:43.180][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2023-06-05 18:16:43.181][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:16:43.182][biodb::testThat]
biodb.TRACE[2023-06-05 18:16:43.187][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:43.188][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:43.190][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.191][ef$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:43.193][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2023-06-05 18:16:43.235][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:43.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:43.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.241][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:43.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:43.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.247][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:43.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:43.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:43.255][function(conn, opt)] With value "squalene".
biodb.DEBUG[2023-06-05 18:16:43.272][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-06-05 18:16:43.303][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:16:43.327][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-06-05 18:16:43.329][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:43.331][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-06-05 18:16:43.374][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:16:43.379][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:16:43.382][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-06-05 18:16:43.384][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:43.386][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-06-05 18:16:43.389][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2023-06-05 18:16:43.411][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:43.413][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:43.414][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.416][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.417][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:43.419][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:43.420][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.422][ef$get] fields variable is a list.
biodb.INFO [2023-06-05 18:16:43.425][biodb::testThat]
biodb.INFO [2023-06-05 18:16:43.426][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2023-06-05 18:16:43.428][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:16:43.429][biodb::testThat]
biodb.TRACE[2023-06-05 18:16:43.477][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:43.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:43.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.483][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:43.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:43.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:43.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:43.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:43.578][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:16:43.582][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:16:43.584][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-06-05 18:16:43.586][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:43.588][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2023-06-05 18:16:43.611][biodb::testThat]
biodb.INFO [2023-06-05 18:16:43.612][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2023-06-05 18:16:43.613][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:16:43.615][biodb::testThat]
biodb.TRACE[2023-06-05 18:16:43.661][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:43.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:43.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:43.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:43.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:43.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:43.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:43.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:43.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:43.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:43.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:43.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:43.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.695][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-06-05 18:16:43.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-06-05 18:16:43.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.701][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-06-05 18:16:43.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-06-05 18:16:43.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.706][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-06-05 18:16:43.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-06-05 18:16:43.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.711][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-06-05 18:16:43.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-06-05 18:16:43.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:43.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:43.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:43.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:43.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.756][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:43.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:43.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:43.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:43.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:43.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:43.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:43.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:43.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.778][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-06-05 18:16:43.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-06-05 18:16:43.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.784][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-06-05 18:16:43.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-06-05 18:16:43.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.789][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-06-05 18:16:43.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-06-05 18:16:43.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:43.795][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-06-05 18:16:43.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-06-05 18:16:43.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:43.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-06-05 18:16:43.804][biodb::testThat]
biodb.INFO [2023-06-05 18:16:43.805][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-06-05 18:16:43.806][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:16:43.808][biodb::testThat]
biodb.INFO [2023-06-05 18:16:43.814][biodb::testThat]
biodb.INFO [2023-06-05 18:16:43.816][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-06-05 18:16:43.817][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:16:43.818][biodb::testThat]
biodb.INFO [2023-06-05 18:16:43.826][biodb::testThat]
biodb.INFO [2023-06-05 18:16:43.827][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2023-06-05 18:16:43.828][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:16:43.830][biodb::testThat]
biodb.DEBUG[2023-06-05 18:16:43.834][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2023-06-05 18:16:49.529][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2023-06-05 18:16:52.803][biodb::testThat]
biodb.INFO [2023-06-05 18:16:52.806][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2023-06-05 18:16:52.808][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:16:52.810][biodb::testThat]
biodb.DEBUG[2023-06-05 18:16:55.714][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2023-06-05 18:16:57.763][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:57.765][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:57.767][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:57.769][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:57.771][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:57.773][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:57.775][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:57.777][ef$get] fields variable is a list.
biodb.INFO [2023-06-05 18:16:57.780][biodb::testThat]
biodb.INFO [2023-06-05 18:16:57.782][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2023-06-05 18:16:57.784][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:16:57.786][biodb::testThat]
biodb.TRACE[2023-06-05 18:16:57.821][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:57.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:57.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:57.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:57.829][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:57.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:57.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:57.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:57.837][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:57.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:57.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:57.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:58.025][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:16:58.032][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:16:58.034][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-06-05 18:16:58.037][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:58.039][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-06-05 18:16:58.152][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:16:58.156][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:16:58.158][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-06-05 18:16:58.160][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:58.162][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2023-06-05 18:16:58.185][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-06-05 18:16:58.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-06-05 18:16:58.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:58.292][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:16:58.296][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:16:58.298][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-06-05 18:16:58.300][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:58.303][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-06-05 18:16:58.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:58.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:58.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:58.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:58.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:58.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:58.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:58.323][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2023-06-05 18:16:58.391][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:16:58.394][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2023-06-05 18:16:58.395][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:58.398][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2023-06-05 18:16:58.400][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:16:58.425][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:16:58.427][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:16:58.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:58.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:58.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:58.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:58.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:58.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:58.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:16:58.447][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:58.449][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:58.450][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.452][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:58.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:58.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.463][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:58.464][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:58.466][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.467][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.469][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:58.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:58.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.487][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:58.489][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:58.490][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.491][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.494][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:58.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:58.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.503][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:58.505][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:58.506][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.507][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.509][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:58.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:58.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.518][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:58.520][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:58.521][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.523][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.525][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:58.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:58.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.534][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:58.536][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:58.537][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.538][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.540][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:16:58.542][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.543][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.544][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.546][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:16:58.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.556][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:58.557][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:58.559][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.560][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:58.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:58.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.571][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:58.573][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:58.574][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.576][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.578][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:58.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:58.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.587][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:58.588][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:58.590][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.591][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.593][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:58.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:58.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.602][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:58.604][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:58.605][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.607][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.609][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:58.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:58.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:58.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:58.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:58.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:58.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:58.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:58.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:58.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:58.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:58.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:58.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:58.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:58.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:58.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:58.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:58.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:58.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:58.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:58.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:58.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:58.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:58.679][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2023-06-05 18:16:58.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:58.710][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:16:58.715][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:16:58.716][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-06-05 18:16:58.718][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:58.721][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-06-05 18:16:58.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:58.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:58.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:58.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:58.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:58.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:58.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:16:58.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:58.784][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:16:58.788][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:16:58.790][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-06-05 18:16:58.792][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:58.794][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-06-05 18:16:58.852][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:16:58.856][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:16:58.858][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-06-05 18:16:58.859][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:58.861][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-06-05 18:16:58.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:58.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:58.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:58.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:58.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:58.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:58.899][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:16:58.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:58.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:58.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:58.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:58.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:58.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:58.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:58.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:58.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:58.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:58.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:58.932][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2023-06-05 18:16:58.934][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:16:58.936][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2023-06-05 18:16:58.938][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:58.940][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2023-06-05 18:16:58.942][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:16:58.967][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:16:58.968][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:16:58.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:58.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:58.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:58.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:58.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:58.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:58.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:16:58.997][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:58.998][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:58.999][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.001][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.011][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:59.013][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:59.015][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.016][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.018][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:59.019][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:59.021][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.022][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.024][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:59.025][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:59.027][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.028][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.030][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:59.031][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:59.032][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.034][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.035][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:59.037][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:59.038][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.040][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.041][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:16:59.043][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.044][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.045][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.047][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:59.049][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:59.050][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.051][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.053][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:59.054][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:59.056][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.057][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.059][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:59.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:59.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.068][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:59.070][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:59.071][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.072][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.074][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:59.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:59.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.084][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:59.085][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:59.086][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.088][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:59.150][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2023-06-05 18:16:59.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:59.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:59.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:59.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:59.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:59.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:59.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:59.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:59.197][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2023-06-05 18:16:59.198][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:16:59.200][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2023-06-05 18:16:59.202][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:59.205][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2023-06-05 18:16:59.206][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:16:59.241][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:16:59.242][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:16:59.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:59.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:59.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:59.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:59.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:59.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:59.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:16:59.262][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.264][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.265][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.266][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.278][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:59.279][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:59.281][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.282][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.284][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:59.285][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:59.287][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.288][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.290][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:59.292][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:59.293][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.294][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.296][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:59.298][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:59.299][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.300][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.302][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:59.304][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:59.305][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.306][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.308][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:16:59.310][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.311][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.312][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.314][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:59.316][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:59.317][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.318][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.320][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:59.321][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:59.323][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.324][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.327][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:59.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:59.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.336][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:59.337][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:59.339][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.340][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.342][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:59.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:59.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.351][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:59.353][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:59.354][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.356][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:59.420][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2023-06-05 18:16:59.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:59.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:59.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:59.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:59.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:59.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:59.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:59.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:16:59.466][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2023-06-05 18:16:59.468][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:16:59.470][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2023-06-05 18:16:59.472][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:59.474][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2023-06-05 18:16:59.476][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:16:59.509][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:16:59.511][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:16:59.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:59.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:59.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:59.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:59.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:59.528][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:59.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:16:59.533][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.534][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.536][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.537][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.550][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:59.551][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:59.553][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.554][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.556][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:59.558][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:59.559][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.560][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.562][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:59.564][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:59.566][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.567][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.569][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:59.570][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:59.572][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.573][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.575][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:59.577][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:59.578][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.580][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.582][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:16:59.583][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.585][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.586][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.588][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:59.590][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:59.591][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.593][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.594][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:59.596][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:59.597][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.599][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.602][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:59.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:59.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.612][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:59.613][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:59.615][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.616][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.618][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:59.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:59.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.628][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:59.630][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:59.632][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.633][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:59.696][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2023-06-05 18:16:59.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:16:59.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:59.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:59.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:59.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:59.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:59.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:59.741][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[2023-06-05 18:16:59.742][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2023-06-05 18:16:59.744][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:16:59.746][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2023-06-05 18:16:59.748][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:16:59.751][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2023-06-05 18:16:59.752][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:16:59.786][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:16:59.788][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:16:59.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:16:59.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:16:59.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:16:59.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:16:59.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:16:59.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:16:59.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:16:59.808][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.810][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.811][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.812][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.824][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:59.826][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:59.827][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.828][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.830][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:16:59.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:16:59.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.840][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:59.841][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:59.843][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.844][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.846][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:16:59.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:16:59.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.856][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:59.857][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:59.859][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.860][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.862][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:16:59.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:16:59.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.871][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:59.873][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:59.874][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.876][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.878][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:16:59.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:16:59.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.887][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:59.889][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:59.890][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.891][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.893][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:59.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:16:59.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.903][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:16:59.904][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.906][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.907][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.909][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:16:59.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:16:59.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.918][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:59.920][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:59.921][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.923][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:59.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:16:59.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.934][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:59.935][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:59.937][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.938][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:16:59.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:16:59.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.950][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:59.952][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:59.953][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.954][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.956][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:16:59.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:16:59.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.966][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:59.967][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:59.969][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.970][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.972][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:16:59.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:16:59.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:16:59.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:16:59.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:16:59.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:16:59.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:16:59.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:00.053][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2023-06-05 18:17:00.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:00.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:00.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:00.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:00.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:00.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:00.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:00.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:00.093][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2023-06-05 18:17:00.095][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:00.098][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2023-06-05 18:17:00.100][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:00.103][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2023-06-05 18:17:00.105][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:00.135][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:00.137][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:00.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:00.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:00.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:00.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:00.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:00.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:00.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:00.160][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.161][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.163][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.164][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.177][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:00.179][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:00.180][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.182][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.184][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:00.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:00.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.194][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:00.196][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:00.198][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.199][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.201][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:00.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:00.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.212][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:00.213][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:00.215][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.216][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:00.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:00.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.229][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:00.230][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:00.232][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.233][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.235][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:00.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:00.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.246][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:00.247][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:00.249][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.250][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.252][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:00.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:00.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.263][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:00.264][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.266][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.268][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.270][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:00.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.280][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:00.282][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:00.283][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.285][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:00.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:00.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.297][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:00.299][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:00.300][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.302][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.304][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:00.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:00.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.328][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:00.329][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:00.331][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.332][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.334][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:00.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:00.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.344][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:00.346][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:00.347][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.349][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.350][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:00.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:00.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:00.422][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2023-06-05 18:17:00.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:00.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:00.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:00.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:00.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:00.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:00.454][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:00.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:00.457][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2023-06-05 18:17:00.458][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:00.461][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2023-06-05 18:17:00.462][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:00.465][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2023-06-05 18:17:00.467][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:00.491][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:00.493][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:00.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:00.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:00.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:00.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:00.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:00.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:00.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:00.514][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.515][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.516][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.518][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.529][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:00.530][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:00.532][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.533][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.535][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:00.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:00.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.545][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:00.546][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:00.547][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.549][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.551][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:00.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:00.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.560][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:00.562][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:00.563][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.565][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:00.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:00.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.584][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:00.586][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:00.587][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.589][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.590][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:00.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:00.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.600][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:00.602][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:00.603][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.605][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.606][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:00.608][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.609][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.611][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.613][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:00.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.622][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:00.624][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:00.625][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.627][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:00.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:00.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.640][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:00.641][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:00.643][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.644][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.646][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:00.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:00.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.656][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:00.658][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:00.659][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.660][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.662][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:00.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:00.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.672][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:00.673][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:00.675][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.676][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.678][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:00.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:00.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:00.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:00.753][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2023-06-05 18:17:00.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:00.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:00.774][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:00.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:00.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:00.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:00.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:00.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:00.789][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2023-06-05 18:17:00.791][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:00.793][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2023-06-05 18:17:00.795][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:00.798][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2023-06-05 18:17:00.800][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:00.826][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:00.828][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:00.831][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:00.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:00.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:00.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:00.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:00.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:00.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:00.859][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.860][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.862][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.863][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:00.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:00.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.875][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:00.876][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:00.878][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.879][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.881][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:00.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:00.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.891][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:00.892][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:00.894][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.895][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.897][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:00.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:00.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.907][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:00.909][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:00.910][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.912][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.914][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:00.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:00.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.923][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:00.925][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:00.926][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.928][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:00.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:00.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.940][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:00.941][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:00.943][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.944][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.946][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:00.948][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.949][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.951][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.952][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:00.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:00.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.962][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:00.964][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:00.965][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.967][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:00.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:00.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.979][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:00.980][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:00.982][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.983][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.985][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:00.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:00.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:00.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:00.995][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:00.997][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:00.998][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.000][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.002][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:01.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:01.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.012][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:01.013][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:01.015][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.016][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.018][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:01.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:01.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:01.093][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2023-06-05 18:17:01.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:01.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:01.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:01.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:01.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:01.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:01.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:01.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:01.137][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2023-06-05 18:17:01.139][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:01.141][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2023-06-05 18:17:01.143][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:01.145][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2023-06-05 18:17:01.147][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:01.173][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:01.174][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:01.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:01.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:01.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:01.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:01.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:01.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:01.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:01.195][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.197][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.198][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.199][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.211][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:01.212][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:01.214][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.215][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.217][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:01.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:01.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.226][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:01.228][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:01.229][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.231][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.233][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:01.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:01.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.243][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:01.245][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:01.246][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.248][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.250][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:01.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:01.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.259][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:01.261][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:01.262][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.264][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:01.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:01.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.275][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:01.277][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:01.278][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.280][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.281][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:01.283][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.284][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.286][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.287][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:01.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.297][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:01.299][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:01.300][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.301][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:01.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:01.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.313][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:01.314][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:01.316][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.317][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.319][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:01.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:01.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.329][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:01.330][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:01.332][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.333][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.335][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:01.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:01.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.345][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:01.346][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:01.348][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.349][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.351][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:01.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:01.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:01.432][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2023-06-05 18:17:01.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:01.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:01.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:01.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:01.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:01.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:01.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:01.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:01.470][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2023-06-05 18:17:01.471][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:01.473][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2023-06-05 18:17:01.475][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:01.478][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2023-06-05 18:17:01.480][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:01.506][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:01.508][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:01.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:01.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:01.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:01.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:01.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:01.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:01.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:01.529][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.531][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.532][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.534][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.545][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:01.547][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:01.548][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.550][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.551][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:01.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:01.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.561][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:01.563][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:01.564][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.565][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.567][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:01.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:01.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.577][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:01.578][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:01.580][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.581][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.583][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:01.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:01.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.592][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:01.594][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:01.595][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.597][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:01.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:01.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.608][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:01.609][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:01.611][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.612][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.614][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:01.616][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.617][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.618][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.620][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:01.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.630][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:01.631][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:01.633][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.634][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:01.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:01.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.655][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:01.656][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:01.658][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.659][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:01.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:01.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.670][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:01.672][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:01.673][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.675][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.677][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:01.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:01.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.686][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:01.688][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:01.689][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.690][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.692][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:01.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:01.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:01.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:01.764][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2023-06-05 18:17:01.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:01.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:01.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:01.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:01.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:01.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:01.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:01.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:01.799][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2023-06-05 18:17:01.801][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:01.803][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2023-06-05 18:17:01.805][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:01.807][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2023-06-05 18:17:01.809][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:01.835][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:01.836][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:01.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:01.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:01.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:01.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:01.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:01.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:01.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:01.858][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.860][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.861][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.863][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:01.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:01.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.874][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:01.876][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:01.877][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.878][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.880][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:01.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:01.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.890][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:01.891][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:01.893][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.894][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.896][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:01.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:01.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.954][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:01.956][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:01.957][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.959][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:01.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:01.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.971][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:01.972][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:01.974][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.975][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:01.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:01.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.987][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:01.989][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:01.990][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.992][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:01.993][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:01.995][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:01.996][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:01.998][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.000][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:02.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.009][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.011][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.012][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.014][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.025][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:02.027][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:02.028][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.030][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.032][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:02.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:02.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.042][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:02.043][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:02.045][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.046][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.048][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:02.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:02.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.059][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:02.061][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:02.062][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.063][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.065][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:02.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:02.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:02.139][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2023-06-05 18:17:02.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:02.159][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:02.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:02.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:02.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:02.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:02.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:02.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:02.175][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2023-06-05 18:17:02.176][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:02.179][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2023-06-05 18:17:02.181][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:02.183][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2023-06-05 18:17:02.185][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:02.219][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:02.221][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:02.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:02.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:02.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:02.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:02.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:02.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:02.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:02.244][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.245][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.247][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.249][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.262][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:02.264][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:02.265][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.267][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.269][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:02.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:02.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.279][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:02.281][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:02.282][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.284][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.286][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:02.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:02.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.296][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:02.298][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:02.299][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.300][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.302][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:02.304][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:02.305][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.307][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.308][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:02.310][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:02.311][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.313][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.315][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:02.316][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.318][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.319][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.321][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:02.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.330][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.332][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.333][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.335][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.346][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:02.348][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:02.349][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.351][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:02.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:02.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.363][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:02.367][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:02.368][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.370][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.372][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:02.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:02.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.381][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:02.383][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:02.384][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.386][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:02.450][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2023-06-05 18:17:02.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:02.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:02.473][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:02.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:02.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:02.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:02.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:02.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:02.488][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2023-06-05 18:17:02.498][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:02.501][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2023-06-05 18:17:02.502][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:02.505][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2023-06-05 18:17:02.507][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:02.533][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:02.535][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:02.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:02.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:02.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:02.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:02.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:02.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:02.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:02.556][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.558][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.559][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.561][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.572][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:02.574][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:02.575][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.577][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.578][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:02.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:02.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.588][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:02.590][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:02.591][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.592][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.594][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:02.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:02.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.604][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:02.606][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:02.607][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.608][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.610][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:02.612][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:02.613][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.614][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.616][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:02.618][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:02.619][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.621][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.622][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:02.624][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.625][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.627][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.628][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:02.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.638][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.640][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.641][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.643][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.654][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:02.656][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:02.657][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.658][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:02.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:02.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.672][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:02.673][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:02.675][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.676][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.678][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:02.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:02.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.687][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:02.689][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:02.690][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.692][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:02.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:02.755][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2023-06-05 18:17:02.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:02.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:02.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:02.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:02.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:02.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:02.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:02.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:02.799][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2023-06-05 18:17:02.800][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:02.803][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2023-06-05 18:17:02.804][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:02.807][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2023-06-05 18:17:02.809][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:02.834][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:02.836][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:02.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:02.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:02.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:02.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:02.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:02.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:02.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:02.857][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.858][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.860][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.861][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:02.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:02.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.874][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:02.875][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:02.877][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.878][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.880][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:02.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:02.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.890][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:02.892][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:02.893][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.895][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.896][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:02.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:02.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.906][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:02.908][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:02.909][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.911][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:02.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:02.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.922][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:02.924][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:02.925][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.927][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:02.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:02.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.938][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:02.940][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:02.942][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.943][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.945][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:02.946][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.948][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.949][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.951][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:02.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:02.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.961][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.962][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.964][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.965][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:02.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.977][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:02.979][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:02.980][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.982][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.984][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:02.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:02.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:02.994][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:02.995][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:02.997][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:02.998][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.000][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:03.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:03.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.010][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:03.011][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:03.013][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.014][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.016][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:03.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:03.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:03.100][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2023-06-05 18:17:03.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:03.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:03.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:03.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:03.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:03.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:03.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:03.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:03.144][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2023-06-05 18:17:03.146][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:03.149][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2023-06-05 18:17:03.151][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:03.154][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2023-06-05 18:17:03.156][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:03.185][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:03.187][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:03.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:03.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:03.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:03.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:03.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:03.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:03.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:03.210][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.212][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.213][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.215][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.227][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:03.229][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:03.231][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.232][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.234][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:03.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:03.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.245][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:03.246][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:03.248][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.249][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.251][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:03.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:03.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.262][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:03.264][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:03.265][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.266][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:03.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:03.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.280][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:03.281][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:03.283][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.284][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.286][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:03.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:03.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.296][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:03.298][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:03.300][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.301][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.303][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:03.305][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.306][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.308][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.310][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:03.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.334][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:03.336][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:03.337][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.339][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:03.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:03.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.351][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:03.353][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:03.354][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.356][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.358][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:03.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:03.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.368][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:03.370][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:03.371][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.373][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.374][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:03.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:03.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.385][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:03.386][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:03.388][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.389][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.391][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:03.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:03.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:03.466][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2023-06-05 18:17:03.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:03.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:03.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:03.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:03.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:03.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:03.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:03.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:03.504][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2023-06-05 18:17:03.506][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:03.508][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2023-06-05 18:17:03.510][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:03.513][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2023-06-05 18:17:03.515][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:03.541][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:03.543][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:03.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:03.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:03.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:03.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:03.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:03.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:03.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:03.564][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.566][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.568][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.569][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.581][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:03.582][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:03.584][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.585][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.587][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:03.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:03.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.597][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:03.607][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:03.609][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.610][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.612][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:03.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:03.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.622][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:03.624][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:03.626][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.627][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:03.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:03.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.639][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:03.641][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:03.642][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.644][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.646][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:03.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:03.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.656][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:03.658][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:03.659][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.661][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.663][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:03.665][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.666][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.668][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.670][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:03.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.680][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:03.682][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:03.684][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.685][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:03.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:03.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.697][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:03.699][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:03.701][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.702][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.704][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:03.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:03.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.714][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:03.716][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:03.717][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.719][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.720][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:03.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:03.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.730][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:03.732][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:03.733][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.734][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.736][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:03.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:03.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:03.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:03.807][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2023-06-05 18:17:03.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:03.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:03.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:03.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:03.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:03.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:03.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:03.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:03.843][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2023-06-05 18:17:03.844][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:03.846][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2023-06-05 18:17:03.848][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:03.851][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2023-06-05 18:17:03.852][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:03.887][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:03.889][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:03.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:03.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:03.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:03.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:03.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:03.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:03.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:03.909][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.911][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.912][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.914][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:03.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:03.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.925][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:03.927][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:03.928][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.929][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.931][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:03.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:03.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.941][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:03.942][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:03.944][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.945][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.947][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:03.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:03.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.957][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:03.958][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:03.960][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.961][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:03.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:03.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.972][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:03.974][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:03.975][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.977][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:03.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:03.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.988][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:03.989][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:03.991][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.992][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:03.994][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:03.996][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:03.997][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:03.998][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.000][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:04.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.009][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:04.011][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:04.012][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.014][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:04.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:04.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.025][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:04.027][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:04.028][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.029][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.031][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:04.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:04.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.041][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:04.042][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:04.044][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.045][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.047][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:04.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:04.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.056][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:04.058][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:04.060][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.061][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.063][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:04.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:04.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:04.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:04.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:04.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:04.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:04.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:04.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.143][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2023-06-05 18:17:04.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:04.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:04.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:04.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:04.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:04.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:04.176][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[2023-06-05 18:17:04.178][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2023-06-05 18:17:04.179][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:04.182][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2023-06-05 18:17:04.184][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:04.187][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2023-06-05 18:17:04.188][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:04.215][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:04.217][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:04.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:04.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:04.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:04.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:04.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:04.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:04.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:04.237][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.239][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.240][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.242][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.253][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:04.255][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:04.256][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.257][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.259][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:04.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:04.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.269][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:04.271][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:04.272][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.273][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.275][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:04.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:04.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.285][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:04.287][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:04.288][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.290][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:04.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:04.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.302][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:04.303][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:04.305][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.306][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:04.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:04.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.318][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:04.320][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:04.321][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.322][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.324][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:04.326][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.327][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.329][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.331][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:04.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.341][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:04.343][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:04.344][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.346][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:04.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:04.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.358][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:04.359][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:04.361][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.362][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.364][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:04.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:04.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.374][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:04.375][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:04.377][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.378][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.380][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:04.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:04.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.390][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:04.391][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:04.393][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.394][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.396][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:04.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:04.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:04.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:04.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:04.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:04.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:04.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:04.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:04.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:04.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.476][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2023-06-05 18:17:04.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.545][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:04.550][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:04.552][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-06-05 18:17:04.554][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:04.556][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-06-05 18:17:04.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:04.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:04.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:04.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:04.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:04.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:04.596][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:04.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:04.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:04.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:04.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:04.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:04.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:04.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:04.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:04.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:04.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:04.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:04.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:04.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:04.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:04.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:04.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:04.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:04.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:04.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:04.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:04.730][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:04.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:04.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:04.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:04.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:04.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:04.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:04.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:04.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:04.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:04.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:04.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:04.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:04.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:04.810][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:04.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:04.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:04.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:04.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:04.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:04.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:04.843][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:04.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:04.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:04.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:04.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:04.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:04.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:04.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:04.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:04.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:04.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:04.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:04.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:04.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:04.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:04.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:04.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:04.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:04.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:04.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:04.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:04.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:04.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:04.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:04.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:04.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:04.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:04.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:04.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:04.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:04.993][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:04.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:04.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:04.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:05.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:05.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:05.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:05.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:05.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:05.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:05.028][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.TRACE[2023-06-05 18:17:05.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:05.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:05.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:05.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:05.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:05.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:05.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:05.061][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:05.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:05.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:05.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:05.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:05.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:05.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:05.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:05.095][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:05.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:05.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:05.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:05.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:05.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:05.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:05.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:05.129][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:05.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:05.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:05.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:05.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:05.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:05.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:05.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:05.162][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:05.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:05.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:05.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:05.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:05.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:05.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:05.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:05.204][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.TRACE[2023-06-05 18:17:05.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:05.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:05.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:05.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:05.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:05.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:05.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:05.237][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.TRACE[2023-06-05 18:17:05.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:05.385][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:05.390][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:05.392][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2023-06-05 18:17:05.393][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:05.396][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2023-06-05 18:17:05.400][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:05.405][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:05.406][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2023-06-05 18:17:05.408][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:05.411][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2023-06-05 18:17:05.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:05.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:05.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:05.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:05.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:05.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:05.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:05.440][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2023-06-05 18:17:05.441][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:05.444][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2023-06-05 18:17:05.446][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:05.449][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2023-06-05 18:17:05.450][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:05.476][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:05.478][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:05.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:05.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:05.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:05.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:05.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:05.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:05.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:05.499][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:05.500][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:05.502][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.503][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:05.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:05.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.515][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:05.517][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:05.518][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.520][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.521][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:05.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:05.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.531][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:05.533][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:05.534][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.535][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.538][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:05.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:05.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.547][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:05.549][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:05.550][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.552][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:05.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:05.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.563][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:05.565][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:05.566][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.567][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.569][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:05.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:05.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.579][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:05.581][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:05.582][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.583][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.585][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:05.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:05.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.595][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:05.596][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.598][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.599][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.601][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:05.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.610][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.612][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.613][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.615][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.626][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:05.628][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:05.629][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.630][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.633][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:05.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:05.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.642][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:05.644][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:05.645][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.646][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.648][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:05.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:05.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.657][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:05.659][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:05.660][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.662][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.664][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:05.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:05.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:05.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:05.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:05.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:05.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:05.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:05.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:05.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:05.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:05.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:05.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:05.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:05.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:05.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:05.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:05.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:05.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:05.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:05.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:05.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:05.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:05.743][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2023-06-05 18:17:05.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:05.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:05.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:05.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:05.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:05.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:05.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:05.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:05.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:05.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:05.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:05.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:05.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:05.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:05.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:05.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:05.810][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2023-06-05 18:17:05.812][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:05.814][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2023-06-05 18:17:05.816][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:05.818][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2023-06-05 18:17:05.820][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:05.846][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:05.847][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:05.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:05.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:05.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:05.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:05.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:05.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:05.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:05.868][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:05.869][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:05.871][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.872][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:05.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:05.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.883][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:05.885][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:05.886][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.887][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.889][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:05.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:05.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.899][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:05.900][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:05.902][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.903][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.905][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:05.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:05.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.914][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:05.916][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:05.917][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.919][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:05.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:05.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.930][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:05.931][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:05.933][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.934][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:05.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:05.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.954][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:05.956][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:05.957][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.958][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.960][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:05.961][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.963][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.964][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.966][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:05.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:05.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.975][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.977][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.978][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.979][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:05.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.990][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:05.992][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:05.993][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:05.995][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:05.997][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:05.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:06.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.006][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:06.008][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:06.009][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.010][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.012][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:06.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:06.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.021][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:06.023][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:06.024][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.025][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.027][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:06.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:06.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:06.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:06.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:06.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:06.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:06.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:06.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:06.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:06.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:06.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:06.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:06.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:06.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:06.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:06.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:06.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:06.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:06.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:06.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:06.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:06.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.097][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2023-06-05 18:17:06.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.171][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:06.175][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:06.177][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-06-05 18:17:06.179][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:06.180][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-06-05 18:17:06.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:06.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:06.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.304][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:06.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.348][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:06.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:06.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.425][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:06.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:06.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.503][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:06.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.538][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:06.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:06.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.601][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.605][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.TRACE[2023-06-05 18:17:06.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:06.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.670][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.TRACE[2023-06-05 18:17:06.672][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.712][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.TRACE[2023-06-05 18:17:06.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:06.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.764][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:06.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.810][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:06.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:06.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.909][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:06.913][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:06.915][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-06-05 18:17:06.917][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:06.919][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-06-05 18:17:06.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.967][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.TRACE[2023-06-05 18:17:06.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:06.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:06.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:06.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:06.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:06.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:06.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:06.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:06.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:06.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:06.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:07.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.050][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:07.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.098][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:07.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:07.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.182][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:07.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:07.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.266][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.TRACE[2023-06-05 18:17:07.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.299][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:07.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.333][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:07.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.367][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.TRACE[2023-06-05 18:17:07.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:07.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.428][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.432][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:07.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:07.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.496][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:07.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.543][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:07.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.576][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.TRACE[2023-06-05 18:17:07.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:07.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:07.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.654][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-06-05 18:17:07.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-06-05 18:17:07.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-06-05 18:17:07.676][biodb::testThat]
biodb.INFO [2023-06-05 18:17:07.678][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2023-06-05 18:17:07.679][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:17:07.680][biodb::testThat]
biodb.TRACE[2023-06-05 18:17:07.685][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-06-05 18:17:07.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-06-05 18:17:07.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:07.806][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:07.810][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:07.812][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-06-05 18:17:07.814][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:07.816][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-06-05 18:17:07.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.833][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:07.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.853][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:07.857][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:07.859][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-06-05 18:17:07.861][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:07.863][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-06-05 18:17:07.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.881][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.TRACE[2023-06-05 18:17:07.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:07.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:07.901][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:07.905][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:07.907][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-06-05 18:17:07.909][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:07.911][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-06-05 18:17:07.914][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-06-05 18:17:07.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:07.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:07.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:07.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:07.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:07.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:07.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:07.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.945][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:07.946][private$selectFields]
biodb.TRACE[2023-06-05 18:17:07.948][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:07.949][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:07.950][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:07.952][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.955][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.956][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.958][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.961][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.962][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.963][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:07.965][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:07.966][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.968][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.969][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.970][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.972][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:07.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:07.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:07.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:07.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.013][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-06-05 18:17:08.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:08.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:08.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:08.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:08.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:08.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:08.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:08.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.042][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.043][private$selectFields]
biodb.TRACE[2023-06-05 18:17:08.045][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:08.046][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:08.047][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.049][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.050][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.051][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.053][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.054][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.056][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.057][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.058][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.060][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.061][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.062][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.064][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.065][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.066][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.068][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:08.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.086][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-06-05 18:17:08.088][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-06-05 18:17:08.089][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-06-05 18:17:08.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:08.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:08.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:08.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:08.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:08.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:08.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:08.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:08.287][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:08.291][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:08.293][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-06-05 18:17:08.295][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:08.298][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-06-05 18:17:08.302][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:08.306][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:08.308][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-06-05 18:17:08.310][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:08.312][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-06-05 18:17:08.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:08.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:08.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:08.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:08.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:08.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:08.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:08.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:08.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:08.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:08.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:08.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:08.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:08.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:08.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:08.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:08.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:08.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:08.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:08.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:08.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:08.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:08.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:08.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:08.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:08.449][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-06-05 18:17:08.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:08.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:08.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:08.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:08.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:08.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:08.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:08.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.521][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.523][private$selectFields]
biodb.TRACE[2023-06-05 18:17:08.524][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:08.525][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:08.527][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.528][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.530][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.531][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.532][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.534][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.535][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.536][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.538][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.539][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.541][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.545][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.546][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.547][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.549][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:08.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.567][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-06-05 18:17:08.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:08.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:08.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:08.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:08.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:08.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:08.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:08.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.642][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.643][private$selectFields]
biodb.TRACE[2023-06-05 18:17:08.645][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:08.646][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:08.647][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.649][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.650][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.651][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.653][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.654][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.655][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.657][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.658][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.659][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.674][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.676][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.677][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.678][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.679][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.689][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:08.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.708][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-06-05 18:17:08.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:08.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:08.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:08.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:08.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:08.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:08.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:08.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.736][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.738][private$selectFields]
biodb.TRACE[2023-06-05 18:17:08.739][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:08.740][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:08.742][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.743][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.745][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.747][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.748][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.750][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.751][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.752][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.754][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.755][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.756][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:08.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.759][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.760][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.762][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.763][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:08.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:08.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.781][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-06-05 18:17:08.782][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-06-05 18:17:08.784][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-06-05 18:17:08.795][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-06-05 18:17:08.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-06-05 18:17:08.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-06-05 18:17:08.802][biodb::testThat]
biodb.INFO [2023-06-05 18:17:08.803][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2023-06-05 18:17:08.804][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:17:08.806][biodb::testThat]
biodb.TRACE[2023-06-05 18:17:08.810][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-06-05 18:17:08.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-06-05 18:17:08.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:08.847][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:08.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:08.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:08.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:08.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:08.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:08.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:08.912][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:08.916][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:08.918][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-06-05 18:17:08.920][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:08.921][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-06-05 18:17:08.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:08.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:08.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:08.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:08.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:08.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:08.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:08.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:08.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:08.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:08.968][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:08.973][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:08.974][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-06-05 18:17:08.976][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:08.978][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-06-05 18:17:08.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:08.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:08.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:08.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:08.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:08.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:08.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:08.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:08.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:09.016][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:09.020][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:09.022][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-06-05 18:17:09.023][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:09.025][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-06-05 18:17:09.028][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-06-05 18:17:09.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:09.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.057][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.059][private$selectFields]
biodb.TRACE[2023-06-05 18:17:09.060][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:09.061][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:09.063][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.064][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.066][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.067][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.068][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.069][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.071][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.072][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.073][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.075][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.076][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.077][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.079][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.080][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.081][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.083][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:09.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.101][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-06-05 18:17:09.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.116][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:09.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.128][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.129][private$selectFields]
biodb.TRACE[2023-06-05 18:17:09.131][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:09.132][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:09.133][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.135][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.136][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.137][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.138][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.140][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.141][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.142][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.144][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.145][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.146][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.148][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.150][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.151][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.152][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.154][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:09.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.180][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-06-05 18:17:09.181][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-06-05 18:17:09.183][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-06-05 18:17:09.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:09.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:09.293][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:09.297][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:09.299][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-06-05 18:17:09.301][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:09.303][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-06-05 18:17:09.306][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:09.311][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:09.312][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-06-05 18:17:09.314][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:09.316][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-06-05 18:17:09.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.333][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:09.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:09.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.366][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:09.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:09.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:09.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:09.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:09.426][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-06-05 18:17:09.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.443][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:09.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.456][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.457][private$selectFields]
biodb.TRACE[2023-06-05 18:17:09.459][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:09.460][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:09.461][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.463][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.464][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.466][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.467][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.468][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.470][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.471][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.472][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.474][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.475][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.477][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.478][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.479][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.481][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.482][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:09.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.500][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-06-05 18:17:09.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:09.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.529][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.530][private$selectFields]
biodb.TRACE[2023-06-05 18:17:09.531][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:09.533][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:09.534][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.535][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.537][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.538][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.540][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.541][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.542][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.544][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.545][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.547][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.548][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.549][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.551][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.553][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.555][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.556][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:09.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.575][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-06-05 18:17:09.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:09.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.603][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.605][private$selectFields]
biodb.TRACE[2023-06-05 18:17:09.606][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:09.607][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:09.609][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.610][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.611][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.613][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.614][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.616][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.617][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.618][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.620][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.621][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.622][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.624][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.625][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.627][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.628][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.629][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:09.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.648][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-06-05 18:17:09.649][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-06-05 18:17:09.650][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-06-05 18:17:09.669][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-06-05 18:17:09.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-06-05 18:17:09.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-06-05 18:17:09.677][biodb::testThat]
biodb.INFO [2023-06-05 18:17:09.679][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2023-06-05 18:17:09.680][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:17:09.681][biodb::testThat]
biodb.TRACE[2023-06-05 18:17:09.686][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-06-05 18:17:09.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-06-05 18:17:09.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:09.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:09.791][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:09.796][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:09.797][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-06-05 18:17:09.799][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:09.801][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-06-05 18:17:09.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:09.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:09.838][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:09.842][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:09.844][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-06-05 18:17:09.845][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:09.847][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-06-05 18:17:09.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:09.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:09.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:09.884][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:09.888][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:09.890][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-06-05 18:17:09.892][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:09.894][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-06-05 18:17:09.897][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-06-05 18:17:09.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:09.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.935][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.936][private$selectFields]
biodb.TRACE[2023-06-05 18:17:09.937][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:09.939][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:09.940][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.941][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.943][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.944][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.945][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.947][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.948][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.950][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.951][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.952][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.954][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:09.955][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.957][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.958][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.960][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.961][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:09.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:09.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:09.979][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-06-05 18:17:09.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:09.982][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:09.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:09.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:09.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:09.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:09.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:09.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:09.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.008][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.009][private$selectFields]
biodb.TRACE[2023-06-05 18:17:10.010][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:10.011][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:10.013][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.014][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.016][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.017][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.018][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.020][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.021][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.022][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.024][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.025][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.026][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.028][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.029][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.030][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.032][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.033][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:10.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.052][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-06-05 18:17:10.053][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-06-05 18:17:10.054][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-06-05 18:17:10.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:10.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:10.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:10.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:10.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:10.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:10.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:10.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:10.193][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:10.197][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:10.199][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-06-05 18:17:10.201][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:10.203][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-06-05 18:17:10.207][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:10.211][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:10.213][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-06-05 18:17:10.214][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:10.216][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-06-05 18:17:10.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:10.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:10.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:10.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:10.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:10.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:10.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:10.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:10.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:10.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:10.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:10.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:10.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:10.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:10.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:10.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:10.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:10.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:10.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:10.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:10.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:10.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:10.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:10.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:10.317][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-06-05 18:17:10.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:10.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:10.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:10.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:10.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:10.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:10.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:10.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.347][private$selectFields]
biodb.TRACE[2023-06-05 18:17:10.349][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:10.350][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:10.351][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.353][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.354][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.355][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.357][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.358][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.359][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.361][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.362][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.364][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.365][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.366][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.368][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.369][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.370][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.372][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:10.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.390][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-06-05 18:17:10.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:10.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:10.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:10.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:10.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:10.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:10.415][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:10.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.428][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.429][private$selectFields]
biodb.TRACE[2023-06-05 18:17:10.430][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:10.432][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:10.433][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.434][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.436][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.437][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.438][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.440][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.441][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.442][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.444][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.445][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.446][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.448][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.449][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.450][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.452][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.453][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:10.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.471][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-06-05 18:17:10.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:10.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:10.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:10.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:10.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:10.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:10.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:10.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.499][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.501][private$selectFields]
biodb.TRACE[2023-06-05 18:17:10.502][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-06-05 18:17:10.503][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-06-05 18:17:10.504][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.506][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.507][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.508][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.510][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.511][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.513][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.514][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.515][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.516][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.518][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-06-05 18:17:10.519][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.520][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.522][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.523][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.524][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-06-05 18:17:10.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.542][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-06-05 18:17:10.544][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-06-05 18:17:10.545][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-06-05 18:17:10.575][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-06-05 18:17:10.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-06-05 18:17:10.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-06-05 18:17:10.582][biodb::testThat]
biodb.INFO [2023-06-05 18:17:10.583][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2023-06-05 18:17:10.584][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:17:10.586][biodb::testThat]
biodb.DEBUG[2023-06-05 18:17:10.588][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-06-05 18:17:10.590][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:10.592][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-06-05 18:17:10.594][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:10.596][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2023-06-05 18:17:10.597][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:10.620][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:10.622][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:10.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:10.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:10.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:10.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:10.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:10.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:10.647][FUN] Functions in observer BiodbConfig: [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[2023-06-05 18:17:10.650][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.652][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.653][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.654][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.665][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:10.667][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:10.668][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.669][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.671][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:10.672][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:10.674][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.675][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.677][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:10.678][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:10.680][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.681][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.683][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:10.684][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:10.686][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.687][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.689][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:10.690][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:10.691][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.693][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.694][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:10.696][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:10.697][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.698][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.700][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.701][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.703][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.704][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.706][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:10.707][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:10.709][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.710][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.712][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:10.713][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:10.714][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.716][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.717][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:10.719][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:10.720][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.721][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:10.782][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2023-06-05 18:17:10.783][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-06-05 18:17:10.792][biodb::testThat]
biodb.INFO [2023-06-05 18:17:10.793][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-06-05 18:17:10.795][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:17:10.796][biodb::testThat]
biodb.DEBUG[2023-06-05 18:17:10.809][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2023-06-05 18:17:10.811][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2023-06-05 18:17:10.812][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2023-06-05 18:17:10.814][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2023-06-05 18:17:10.817][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2023-06-05 18:17:10.821][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2023-06-05 18:17:10.823][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:10.847][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2023-06-05 18:17:10.848][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:10.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:10.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:10.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:10.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:10.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:10.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:10.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:10.868][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.869][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.871][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.872][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.892][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:10.893][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:10.895][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.896][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.898][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:10.899][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:10.901][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.902][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.904][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:10.905][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:10.906][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.908][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.909][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:10.911][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:10.912][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.913][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.915][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:10.916][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:10.918][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.919][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.920][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:10.922][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:10.923][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.924][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.926][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.928][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:10.929][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.930][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.932][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:10.933][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:10.934][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.936][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.937][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:10.939][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:10.940][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.941][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.943][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:10.944][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:10.946][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.947][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:10.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:10.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:10.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:10.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:10.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:10.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:10.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:10.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:11.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:11.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:11.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:11.008][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.009][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.010][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.012][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.022][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:11.024][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:11.025][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.027][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.028][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:11.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:11.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.037][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:11.039][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:11.040][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.042][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.044][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:11.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:11.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.053][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:11.054][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:11.056][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.057][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:11.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:11.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.068][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:11.069][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:11.071][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.072][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.074][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:11.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:11.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.083][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:11.084][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:11.086][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.087][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.089][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:11.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:11.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.098][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:11.099][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:11.101][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.102][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.104][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:11.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:11.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.113][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:11.115][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:11.116][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.117][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:11.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:11.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.138][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:11.139][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:11.141][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.142][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.144][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:11.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:11.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.153][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:11.155][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:11.156][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.157][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.159][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:11.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:11.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.168][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:11.169][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:11.171][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.172][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.174][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:11.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:11.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:11.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:11.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:11.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:11.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:11.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:11.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:11.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:11.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:11.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:11.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:11.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:11.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:11.244][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.245][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.246][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.248][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.259][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:11.260][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:11.262][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.263][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.265][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:11.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:11.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.274][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:11.276][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:11.277][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.278][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.280][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:11.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:11.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.290][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:11.291][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:11.293][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.294][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.296][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:11.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:11.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.305][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:11.307][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:11.308][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.309][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:11.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:11.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.321][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:11.322][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:11.324][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.325][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.327][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:11.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:11.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.337][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:11.338][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:11.339][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.341][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.343][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:11.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:11.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.352][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:11.354][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:11.355][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.357][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:11.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:11.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.368][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:11.369][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:11.371][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.372][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:11.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:11.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.393][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:11.395][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:11.396][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.397][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.399][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:11.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:11.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.408][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:11.410][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:11.411][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.412][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.414][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:11.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:11.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:11.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:11.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:11.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:11.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:11.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:11.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:11.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:11.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:11.516][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2023-06-05 18:17:11.517][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-06-05 18:17:11.519][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2023-06-05 18:17:11.535][biodb::testThat]
biodb.INFO [2023-06-05 18:17:11.536][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2023-06-05 18:17:11.537][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:17:11.539][biodb::testThat]
biodb.INFO [2023-06-05 18:17:11.569][biodb::testThat]
biodb.INFO [2023-06-05 18:17:11.570][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2023-06-05 18:17:11.571][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:17:11.573][biodb::testThat]
biodb.INFO [2023-06-05 18:17:11.583][biodb::testThat]
biodb.INFO [2023-06-05 18:17:11.584][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2023-06-05 18:17:11.586][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:17:11.587][biodb::testThat]
biodb.DEBUG[2023-06-05 18:17:11.590][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:11.595][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:11.596][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2023-06-05 18:17:11.598][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:11.601][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2023-06-05 18:17:11.630][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:11.631][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:11.633][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.634][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:11.635][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:11.637][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:11.638][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:11.639][ef$get] fields variable is a list.
biodb.INFO [2023-06-05 18:17:11.641][biodb::testThat]
biodb.INFO [2023-06-05 18:17:11.643][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2023-06-05 18:17:11.644][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:17:11.645][biodb::testThat]
biodb.ERROR[2023-06-05 18:17:11.664][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2023-06-05 18:17:11.685][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2023-06-05 18:17:11.700][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-06-05 18:17:11.701][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-06-05 18:17:11.703][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-06-05 18:17:11.704][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-06-05 18:17:11.705][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:11.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:11.708][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:11.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:11.710][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-06-05 18:17:11.725][biodb::testContext]
biodb.INFO [2023-06-05 18:17:11.727][biodb::testContext] ********************************************************************************
biodb.INFO [2023-06-05 18:17:11.728][biodb::testContext] Test context - Test conversions
biodb.INFO [2023-06-05 18:17:11.729][biodb::testContext] ********************************************************************************
biodb.INFO [2023-06-05 18:17:11.730][biodb::testContext]
biodb.INFO [2023-06-05 18:17:11.737][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.9.0.
biodb.DEBUG[2023-06-05 18:17:11.739][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-06-05 18:17:11.744][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-06-05 18:17:11.746][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-06-05 18:17:11.747][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-06-05 18:17:11.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.752][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-06-05 18:17:11.754][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-06-05 18:17:11.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.759][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-06-05 18:17:11.760][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-06-05 18:17:11.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.765][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-06-05 18:17:11.766][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-06-05 18:17:11.768][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-06-05 18:17:11.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.773][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-06-05 18:17:11.774][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-06-05 18:17:11.776][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-06-05 18:17:11.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.781][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-06-05 18:17:11.782][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-06-05 18:17:11.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.788][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-06-05 18:17:11.789][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-06-05 18:17:11.791][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-06-05 18:17:11.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.794][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[2023-06-05 18:17:11.796][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-06-05 18:17:11.797][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-06-05 18:17:11.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.802][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-06-05 18:17:11.804][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-06-05 18:17:11.805][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-06-05 18:17:11.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.810][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-06-05 18:17:11.812][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-06-05 18:17:11.813][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-06-05 18:17:11.814][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-06-05 18:17:11.816][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-06-05 18:17:11.817][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-06-05 18:17:11.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.822][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-06-05 18:17:11.824][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-06-05 18:17:11.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.829][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-06-05 18:17:11.830][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-06-05 18:17:11.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.835][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-06-05 18:17:11.837][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-06-05 18:17:11.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.841][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-06-05 18:17:11.843][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-06-05 18:17:11.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.848][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-06-05 18:17:11.849][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-06-05 18:17:11.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.863][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-06-05 18:17:11.865][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-06-05 18:17:11.870][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-06-05 18:17:11.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.875][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-06-05 18:17:11.877][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-06-05 18:17:11.878][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-06-05 18:17:11.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:11.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:11.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:11.883][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-06-05 18:17:11.886][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:11.887][self$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[2023-06-05 18:17:11.889][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:11.890][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:11.892][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:11.893][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:11.894][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:11.896][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:17:11.897][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-06-05 18:17:11.898][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:11.900][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:11.901][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-06-05 18:17:11.902][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:11.904][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:11.905][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:11.906][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-06-05 18:17:11.906][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-06-05 18:17:11.906][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-06-05 18:17:11.906][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-06-05 18:17:11.906][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-06-05 18:17:11.908][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:17:11.909][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:11.910][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:11.912][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:11.913][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:11.914][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:11.916][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:11.917][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:11.918][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:11.919][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:11.921][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:11.922][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:11.924][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-06-05 18:17:11.926][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:11.928][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-06-05 18:17:11.929][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:11.930][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:11.932][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:11.933][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:11.934][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:11.936][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:17:11.937][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-06-05 18:17:11.938][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:11.940][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:11.941][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-06-05 18:17:11.943][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:11.944][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:11.945][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:11.947][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-06-05 18:17:11.947][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-06-05 18:17:11.947][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-06-05 18:17:11.947][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-06-05 18:17:11.947][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-06-05 18:17:11.948][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:17:11.949][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:11.950][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:11.952][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:11.953][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:11.954][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:11.956][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:11.957][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:11.958][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:11.959][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:11.961][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:11.962][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:11.964][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-06-05 18:17:11.966][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:11.968][self$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[2023-06-05 18:17:11.969][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:11.970][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:11.972][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:11.973][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:11.974][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:11.976][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:17:11.977][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-06-05 18:17:11.978][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:11.980][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:11.981][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-06-05 18:17:11.982][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:11.984][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:11.985][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:11.986][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:11.988][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:17:11.990][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:11.991][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:11.992][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:11.993][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:11.995][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:11.996][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:11.997][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:11.999][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:12.000][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:12.001][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:12.002][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:12.004][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-06-05 18:17:12.007][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:12.008][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-06-05 18:17:12.009][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:12.011][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:12.012][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:12.013][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:12.015][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:12.016][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:17:12.017][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-06-05 18:17:12.019][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:12.020][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:12.022][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-06-05 18:17:12.023][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:12.024][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:12.026][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:12.027][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:12.029][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:17:12.030][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:12.031][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:12.032][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:12.034][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:12.035][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:12.036][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:12.038][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:12.039][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:12.040][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:12.042][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:12.043][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:12.045][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-06-05 18:17:12.046][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.072][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[2023-06-05 18:17:12.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.139][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[2023-06-05 18:17:12.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.168][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[2023-06-05 18:17:12.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.177][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-06-05 18:17:12.179][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-06-05 18:17:12.182][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-06-05 18:17:12.184][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-06-05 18:17:12.186][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-06-05 18:17:12.189][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-06-05 18:17:12.191][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-06-05 18:17:12.193][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-06-05 18:17:12.196][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-06-05 18:17:12.198][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-06-05 18:17:12.200][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-06-05 18:17:12.202][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-06-05 18:17:12.204][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-06-05 18:17:12.207][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-06-05 18:17:12.209][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-06-05 18:17:12.211][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-06-05 18:17:12.213][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-06-05 18:17:12.215][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-06-05 18:17:12.218][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-06-05 18:17:12.220][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-06-05 18:17:12.222][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-06-05 18:17:12.224][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-06-05 18:17:12.226][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-06-05 18:17:12.229][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-06-05 18:17:12.231][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-06-05 18:17:12.233][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-06-05 18:17:12.235][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-06-05 18:17:12.237][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-06-05 18:17:12.240][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-06-05 18:17:12.242][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-06-05 18:17:12.244][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-06-05 18:17:12.246][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-06-05 18:17:12.248][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-06-05 18:17:12.251][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-06-05 18:17:12.253][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-06-05 18:17:12.255][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-06-05 18:17:12.257][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-06-05 18:17:12.259][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-06-05 18:17:12.261][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-06-05 18:17:12.264][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-06-05 18:17:12.266][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-06-05 18:17:12.268][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-06-05 18:17:12.270][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-06-05 18:17:12.272][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-06-05 18:17:12.274][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-06-05 18:17:12.277][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-06-05 18:17:12.279][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-06-05 18:17:12.281][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-06-05 18:17:12.283][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-06-05 18:17:12.286][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-06-05 18:17:12.288][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-06-05 18:17:12.290][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-06-05 18:17:12.292][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-06-05 18:17:12.294][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-06-05 18:17:12.297][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-06-05 18:17:12.299][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-06-05 18:17:12.301][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-06-05 18:17:12.303][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-06-05 18:17:12.305][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-06-05 18:17:12.308][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-06-05 18:17:12.310][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-06-05 18:17:12.312][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-06-05 18:17:12.314][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-06-05 18:17:12.316][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-06-05 18:17:12.318][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-06-05 18:17:12.320][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-06-05 18:17:12.323][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-06-05 18:17:12.325][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-06-05 18:17:12.327][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-06-05 18:17:12.329][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-06-05 18:17:12.331][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-06-05 18:17:12.334][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-06-05 18:17:12.336][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-06-05 18:17:12.338][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-06-05 18:17:12.340][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-06-05 18:17:12.342][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-06-05 18:17:12.344][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-06-05 18:17:12.347][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-06-05 18:17:12.349][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-06-05 18:17:12.366][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-06-05 18:17:12.369][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-06-05 18:17:12.373][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-06-05 18:17:12.376][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-06-05 18:17:12.378][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-06-05 18:17:12.380][initialize] This is biodb version 1.9.0.
biodb.DEBUG[2023-06-05 18:17:12.382][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-06-05 18:17:12.383][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.386][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.413][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[2023-06-05 18:17:12.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.456][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[2023-06-05 18:17:12.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:12.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.536][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-06-05 18:17:12.538][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-06-05 18:17:12.540][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:12.542][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-06-05 18:17:12.543][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:12.545][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:12.546][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:12.547][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:12.549][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:12.550][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-06-05 18:17:12.551][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-06-05 18:17:12.553][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:12.554][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:12.556][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-06-05 18:17:12.557][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:12.558][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-06-05 18:17:12.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-06-05 18:17:12.558][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-06-05 18:17:12.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-06-05 18:17:12.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-06-05 18:17:12.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-06-05 18:17:12.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-06-05 18:17:12.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-06-05 18:17:12.558][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-06-05 18:17:12.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-06-05 18:17:12.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-06-05 18:17:12.560][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:12.561][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-06-05 18:17:12.561][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-06-05 18:17:12.561][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-06-05 18:17:12.563][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-06-05 18:17:12.564][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:12.565][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:12.566][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:12.568][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:12.569][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:12.570][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:12.572][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-06-05 18:17:12.572][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-06-05 18:17:12.573][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:12.574][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:12.576][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:12.577][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-06-05 18:17:12.577][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-06-05 18:17:12.579][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-06-05 18:17:12.581][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-06-05 18:17:12.583][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-06-05 18:17:12.585][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-06-05 18:17:12.587][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-06-05 18:17:12.589][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-06-05 18:17:12.807][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-06-05 18:17:12.809][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-06-05 18:17:12.810][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-06-05 18:17:12.812][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-06-05 18:17:12.814][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-06-05 18:17:12.815][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-06-05 18:17:12.817][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-06-05 18:17:12.818][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-06-05 18:17:12.820][biodb::testThat]
biodb.INFO [2023-06-05 18:17:12.821][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2023-06-05 18:17:12.822][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:17:12.824][biodb::testThat]
biodb.DEBUG[2023-06-05 18:17:12.829][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-06-05 18:17:12.834][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:12.835][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-06-05 18:17:12.837][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:12.839][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-06-05 18:17:12.843][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:12.848][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:12.849][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-06-05 18:17:12.851][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:12.854][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-06-05 18:17:12.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:12.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.872][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:12.876][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:12.878][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-06-05 18:17:12.880][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:12.882][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-06-05 18:17:12.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:12.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:12.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.941][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:12.946][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:12.947][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-06-05 18:17:12.949][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:12.951][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-06-05 18:17:12.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:12.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.970][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:12.974][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:12.976][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-06-05 18:17:12.978][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:12.979][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-06-05 18:17:12.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:12.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:12.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:12.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:12.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:12.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:12.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:12.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:12.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.017][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:13.021][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:13.023][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-06-05 18:17:13.025][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:13.026][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-06-05 18:17:13.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:13.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.045][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:13.057][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:13.059][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-06-05 18:17:13.060][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:13.062][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-06-05 18:17:13.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:13.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.081][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:13.085][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:13.087][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2023-06-05 18:17:13.089][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:13.091][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2023-06-05 18:17:13.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:13.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-06-05 18:17:13.113][biodb::testThat]
biodb.INFO [2023-06-05 18:17:13.114][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2023-06-05 18:17:13.116][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:17:13.117][biodb::testThat]
biodb.DEBUG[2023-06-05 18:17:13.122][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:13.127][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:13.128][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2023-06-05 18:17:13.130][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:13.133][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2023-06-05 18:17:13.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:13.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.154][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:13.158][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:13.160][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2023-06-05 18:17:13.162][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:13.164][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2023-06-05 18:17:13.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:13.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-06-05 18:17:13.184][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-06-05 18:17:13.186][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-06-05 18:17:13.187][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-06-05 18:17:13.189][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-06-05 18:17:13.190][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.192][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.195][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-06-05 18:17:13.201][biodb::testContext]
biodb.INFO [2023-06-05 18:17:13.202][biodb::testContext] ********************************************************************************
biodb.INFO [2023-06-05 18:17:13.203][biodb::testContext] Test context - Test web services
biodb.INFO [2023-06-05 18:17:13.205][biodb::testContext] ********************************************************************************
biodb.INFO [2023-06-05 18:17:13.206][biodb::testContext]
biodb.INFO [2023-06-05 18:17:13.213][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.9.0.
biodb.DEBUG[2023-06-05 18:17:13.216][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-06-05 18:17:13.221][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-06-05 18:17:13.222][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-06-05 18:17:13.224][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-06-05 18:17:13.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.229][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-06-05 18:17:13.230][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-06-05 18:17:13.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.236][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-06-05 18:17:13.237][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-06-05 18:17:13.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.241][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[2023-06-05 18:17:13.242][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-06-05 18:17:13.244][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-06-05 18:17:13.245][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-06-05 18:17:13.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.250][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-06-05 18:17:13.252][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-06-05 18:17:13.253][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-06-05 18:17:13.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.257][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[2023-06-05 18:17:13.259][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-06-05 18:17:13.260][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-06-05 18:17:13.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.265][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-06-05 18:17:13.267][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-06-05 18:17:13.268][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-06-05 18:17:13.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.273][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-06-05 18:17:13.275][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-06-05 18:17:13.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.280][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-06-05 18:17:13.281][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-06-05 18:17:13.283][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-06-05 18:17:13.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.288][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-06-05 18:17:13.289][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-06-05 18:17:13.291][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-06-05 18:17:13.292][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-06-05 18:17:13.294][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-06-05 18:17:13.295][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-06-05 18:17:13.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.300][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-06-05 18:17:13.302][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-06-05 18:17:13.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.314][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-06-05 18:17:13.316][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-06-05 18:17:13.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.321][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-06-05 18:17:13.323][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-06-05 18:17:13.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.328][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-06-05 18:17:13.330][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-06-05 18:17:13.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.335][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-06-05 18:17:13.337][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-06-05 18:17:13.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.342][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-06-05 18:17:13.344][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-06-05 18:17:13.348][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-06-05 18:17:13.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.353][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-06-05 18:17:13.355][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-06-05 18:17:13.356][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-06-05 18:17:13.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.360][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[2023-06-05 18:17:13.362][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-06-05 18:17:13.364][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:13.366][self$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[2023-06-05 18:17:13.367][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.369][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:13.370][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.372][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:13.373][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:13.374][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:17:13.376][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-06-05 18:17:13.377][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:13.379][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.380][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-06-05 18:17:13.381][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:13.383][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.384][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.386][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-06-05 18:17:13.386][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-06-05 18:17:13.386][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-06-05 18:17:13.386][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-06-05 18:17:13.386][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-06-05 18:17:13.387][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:17:13.388][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:13.390][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:13.391][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:13.392][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:13.394][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:13.395][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:13.397][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.398][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:13.399][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:13.401][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:13.402][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.404][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-06-05 18:17:13.406][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:13.407][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-06-05 18:17:13.409][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.410][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:13.412][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.413][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:13.415][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:13.417][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:17:13.418][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-06-05 18:17:13.420][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:13.421][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.423][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-06-05 18:17:13.424][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:13.426][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.427][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.428][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-06-05 18:17:13.428][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-06-05 18:17:13.428][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-06-05 18:17:13.428][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-06-05 18:17:13.428][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-06-05 18:17:13.430][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:17:13.431][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:13.433][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:13.434][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:13.435][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:13.437][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:13.438][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:13.439][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.441][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:13.442][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:13.443][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:13.445][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.446][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-06-05 18:17:13.449][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.450][self$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[2023-06-05 18:17:13.452][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.453][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:13.454][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.456][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:13.457][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:13.459][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:17:13.460][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-06-05 18:17:13.462][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:13.463][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:13.465][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-06-05 18:17:13.466][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:13.467][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.469][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.470][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.472][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:17:13.473][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:13.474][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:13.476][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:13.477][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:13.478][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:13.480][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:13.481][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.483][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:13.484][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:13.485][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:13.487][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.488][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-06-05 18:17:13.491][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.492][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-06-05 18:17:13.494][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.495][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:13.497][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.498][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:13.499][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:13.501][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:17:13.502][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-06-05 18:17:13.504][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:13.505][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:13.507][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-06-05 18:17:13.508][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:13.509][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.511][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.512][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.514][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:17:13.515][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:13.516][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:13.518][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:13.519][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:13.520][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:13.522][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:13.523][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.525][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:13.526][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:13.527][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:13.529][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:13.531][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-06-05 18:17:13.532][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.629][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[2023-06-05 18:17:13.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.649][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-06-05 18:17:13.652][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-06-05 18:17:13.653][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-06-05 18:17:13.656][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-06-05 18:17:13.658][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-06-05 18:17:13.660][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-06-05 18:17:13.662][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-06-05 18:17:13.664][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-06-05 18:17:13.666][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-06-05 18:17:13.668][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-06-05 18:17:13.670][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-06-05 18:17:13.672][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-06-05 18:17:13.674][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-06-05 18:17:13.676][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-06-05 18:17:13.678][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-06-05 18:17:13.680][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-06-05 18:17:13.682][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-06-05 18:17:13.684][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-06-05 18:17:13.686][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-06-05 18:17:13.688][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-06-05 18:17:13.690][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-06-05 18:17:13.692][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-06-05 18:17:13.694][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-06-05 18:17:13.696][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-06-05 18:17:13.698][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-06-05 18:17:13.701][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-06-05 18:17:13.702][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-06-05 18:17:13.705][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-06-05 18:17:13.707][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-06-05 18:17:13.709][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-06-05 18:17:13.711][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-06-05 18:17:13.713][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-06-05 18:17:13.715][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-06-05 18:17:13.717][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-06-05 18:17:13.719][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-06-05 18:17:13.721][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-06-05 18:17:13.723][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-06-05 18:17:13.725][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-06-05 18:17:13.728][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-06-05 18:17:13.730][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-06-05 18:17:13.732][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-06-05 18:17:13.734][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-06-05 18:17:13.736][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-06-05 18:17:13.738][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-06-05 18:17:13.740][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-06-05 18:17:13.742][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-06-05 18:17:13.744][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-06-05 18:17:13.746][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-06-05 18:17:13.748][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-06-05 18:17:13.750][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-06-05 18:17:13.752][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-06-05 18:17:13.754][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-06-05 18:17:13.756][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-06-05 18:17:13.759][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-06-05 18:17:13.761][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-06-05 18:17:13.763][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-06-05 18:17:13.765][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-06-05 18:17:13.767][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-06-05 18:17:13.769][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-06-05 18:17:13.771][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-06-05 18:17:13.773][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-06-05 18:17:13.775][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-06-05 18:17:13.777][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-06-05 18:17:13.779][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-06-05 18:17:13.781][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-06-05 18:17:13.783][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-06-05 18:17:13.785][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-06-05 18:17:13.787][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-06-05 18:17:13.789][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-06-05 18:17:13.791][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-06-05 18:17:13.793][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-06-05 18:17:13.795][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-06-05 18:17:13.797][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-06-05 18:17:13.799][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-06-05 18:17:13.809][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-06-05 18:17:13.811][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-06-05 18:17:13.813][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-06-05 18:17:13.815][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-06-05 18:17:13.817][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-06-05 18:17:13.820][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-06-05 18:17:13.822][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-06-05 18:17:13.824][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-06-05 18:17:13.826][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-06-05 18:17:13.828][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-06-05 18:17:13.830][initialize] This is biodb version 1.9.0.
biodb.DEBUG[2023-06-05 18:17:13.832][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-06-05 18:17:13.833][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.836][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.915][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[2023-06-05 18:17:13.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.942][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[2023-06-05 18:17:13.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:13.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:13.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:13.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:13.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:13.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:13.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:13.986][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[2023-06-05 18:17:13.989][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-06-05 18:17:13.990][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-06-05 18:17:13.993][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:13.995][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-06-05 18:17:13.996][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:13.998][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:13.999][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.001][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.002][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.003][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-06-05 18:17:14.005][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-06-05 18:17:14.006][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:14.008][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.009][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-06-05 18:17:14.011][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:14.012][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-06-05 18:17:14.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-06-05 18:17:14.012][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-06-05 18:17:14.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-06-05 18:17:14.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-06-05 18:17:14.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-06-05 18:17:14.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-06-05 18:17:14.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-06-05 18:17:14.012][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-06-05 18:17:14.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-06-05 18:17:14.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-06-05 18:17:14.014][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.015][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-06-05 18:17:14.015][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-06-05 18:17:14.015][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-06-05 18:17:14.017][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-06-05 18:17:14.019][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:14.021][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:14.022][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:14.024][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:14.025][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:14.026][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.028][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-06-05 18:17:14.028][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-06-05 18:17:14.029][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:14.030][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:14.032][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.033][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-06-05 18:17:14.033][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-06-05 18:17:14.035][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-06-05 18:17:14.038][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-06-05 18:17:14.040][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-06-05 18:17:14.042][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-06-05 18:17:14.053][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-06-05 18:17:14.055][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-06-05 18:17:14.060][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-06-05 18:17:14.061][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-06-05 18:17:14.063][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-06-05 18:17:14.065][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-06-05 18:17:14.066][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-06-05 18:17:14.068][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-06-05 18:17:14.070][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-06-05 18:17:14.071][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-06-05 18:17:14.073][biodb::testThat]
biodb.INFO [2023-06-05 18:17:14.074][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2023-06-05 18:17:14.076][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:17:14.077][biodb::testThat]
biodb.DEBUG[2023-06-05 18:17:14.082][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-06-05 18:17:14.086][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:14.088][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-06-05 18:17:14.090][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:14.092][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-06-05 18:17:14.097][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:14.101][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:14.103][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2023-06-05 18:17:14.105][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:14.107][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2023-06-05 18:17:14.113][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-06-05 18:17:14.115][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-06-05 18:17:14.117][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-06-05 18:17:14.118][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-06-05 18:17:14.119][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.122][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.124][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-06-05 18:17:14.130][biodb::testContext]
biodb.INFO [2023-06-05 18:17:14.132][biodb::testContext] ********************************************************************************
biodb.INFO [2023-06-05 18:17:14.133][biodb::testContext] Test context - Non regression tests
biodb.INFO [2023-06-05 18:17:14.134][biodb::testContext] ********************************************************************************
biodb.INFO [2023-06-05 18:17:14.136][biodb::testContext]
biodb.INFO [2023-06-05 18:17:14.142][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.9.0.
biodb.DEBUG[2023-06-05 18:17:14.145][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-06-05 18:17:14.149][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-06-05 18:17:14.151][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-06-05 18:17:14.152][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-06-05 18:17:14.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.157][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-06-05 18:17:14.159][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-06-05 18:17:14.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.164][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-06-05 18:17:14.166][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-06-05 18:17:14.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.171][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-06-05 18:17:14.172][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-06-05 18:17:14.174][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-06-05 18:17:14.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.179][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-06-05 18:17:14.181][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-06-05 18:17:14.182][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-06-05 18:17:14.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.187][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-06-05 18:17:14.189][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-06-05 18:17:14.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.194][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-06-05 18:17:14.195][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-06-05 18:17:14.197][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-06-05 18:17:14.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.202][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-06-05 18:17:14.203][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-06-05 18:17:14.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.209][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-06-05 18:17:14.210][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-06-05 18:17:14.212][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-06-05 18:17:14.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.217][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-06-05 18:17:14.219][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-06-05 18:17:14.220][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-06-05 18:17:14.221][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-06-05 18:17:14.223][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-06-05 18:17:14.224][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-06-05 18:17:14.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.229][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-06-05 18:17:14.231][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-06-05 18:17:14.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.237][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-06-05 18:17:14.239][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-06-05 18:17:14.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.244][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-06-05 18:17:14.246][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-06-05 18:17:14.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.251][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-06-05 18:17:14.253][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-06-05 18:17:14.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.258][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-06-05 18:17:14.259][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-06-05 18:17:14.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.264][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-06-05 18:17:14.266][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-06-05 18:17:14.271][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-06-05 18:17:14.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.276][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-06-05 18:17:14.278][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-06-05 18:17:14.279][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-06-05 18:17:14.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.283][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[2023-06-05 18:17:14.285][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-06-05 18:17:14.287][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.289][self$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[2023-06-05 18:17:14.290][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.291][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:14.293][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.294][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.295][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.297][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.298][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-06-05 18:17:14.299][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:14.309][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.310][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-06-05 18:17:14.312][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:14.313][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.314][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.316][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-06-05 18:17:14.316][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-06-05 18:17:14.316][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-06-05 18:17:14.316][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-06-05 18:17:14.316][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-06-05 18:17:14.317][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:17:14.318][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:14.320][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:14.321][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:14.322][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:14.323][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:14.325][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.326][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.327][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:14.328][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:14.330][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.331][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.333][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-06-05 18:17:14.335][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.337][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-06-05 18:17:14.338][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.340][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:14.341][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.342][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.344][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.345][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.346][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-06-05 18:17:14.348][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:14.349][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.350][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-06-05 18:17:14.352][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:14.353][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.354][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.356][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-06-05 18:17:14.356][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-06-05 18:17:14.356][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-06-05 18:17:14.356][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-06-05 18:17:14.356][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-06-05 18:17:14.357][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:17:14.358][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:14.360][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:14.361][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:14.362][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:14.364][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:14.365][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.366][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.367][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:14.369][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:14.370][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.371][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.373][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-06-05 18:17:14.375][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.377][self$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[2023-06-05 18:17:14.378][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.380][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:14.381][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.382][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.384][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.385][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.386][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-06-05 18:17:14.388][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:14.389][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.390][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-06-05 18:17:14.392][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:14.393][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.394][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.396][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.397][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:17:14.398][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:14.400][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:14.401][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:14.402][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:14.403][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:14.405][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.406][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.407][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:14.409][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:14.410][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.411][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.413][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-06-05 18:17:14.415][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.417][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-06-05 18:17:14.418][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.419][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:14.421][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.422][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.423][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.425][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.426][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-06-05 18:17:14.427][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:14.429][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.430][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-06-05 18:17:14.432][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:14.434][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.435][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.436][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.438][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-06-05 18:17:14.439][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:14.440][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:14.441][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:14.443][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:14.444][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:14.445][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.447][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.448][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:14.449][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:14.450][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.452][self$setPropertyValue]
biodb.DEBUG[2023-06-05 18:17:14.453][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-06-05 18:17:14.455][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.456][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[2023-06-05 18:17:14.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.498][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[2023-06-05 18:17:14.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.567][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-06-05 18:17:14.569][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-06-05 18:17:14.571][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-06-05 18:17:14.573][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-06-05 18:17:14.575][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-06-05 18:17:14.577][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-06-05 18:17:14.579][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-06-05 18:17:14.581][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-06-05 18:17:14.583][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-06-05 18:17:14.584][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-06-05 18:17:14.586][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-06-05 18:17:14.588][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-06-05 18:17:14.590][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-06-05 18:17:14.592][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-06-05 18:17:14.594][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-06-05 18:17:14.596][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-06-05 18:17:14.598][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-06-05 18:17:14.600][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-06-05 18:17:14.602][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-06-05 18:17:14.604][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-06-05 18:17:14.606][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-06-05 18:17:14.608][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-06-05 18:17:14.609][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-06-05 18:17:14.611][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-06-05 18:17:14.613][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-06-05 18:17:14.615][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-06-05 18:17:14.617][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-06-05 18:17:14.619][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-06-05 18:17:14.621][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-06-05 18:17:14.623][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-06-05 18:17:14.625][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-06-05 18:17:14.627][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-06-05 18:17:14.629][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-06-05 18:17:14.631][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-06-05 18:17:14.633][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-06-05 18:17:14.636][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-06-05 18:17:14.638][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-06-05 18:17:14.640][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-06-05 18:17:14.642][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-06-05 18:17:14.643][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-06-05 18:17:14.645][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-06-05 18:17:14.647][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-06-05 18:17:14.649][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-06-05 18:17:14.651][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-06-05 18:17:14.653][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-06-05 18:17:14.655][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-06-05 18:17:14.657][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-06-05 18:17:14.659][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-06-05 18:17:14.661][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-06-05 18:17:14.663][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-06-05 18:17:14.664][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-06-05 18:17:14.666][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-06-05 18:17:14.668][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-06-05 18:17:14.670][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-06-05 18:17:14.672][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-06-05 18:17:14.674][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-06-05 18:17:14.676][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-06-05 18:17:14.678][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-06-05 18:17:14.680][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-06-05 18:17:14.682][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-06-05 18:17:14.683][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-06-05 18:17:14.685][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-06-05 18:17:14.687][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-06-05 18:17:14.689][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-06-05 18:17:14.691][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-06-05 18:17:14.693][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-06-05 18:17:14.695][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-06-05 18:17:14.697][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-06-05 18:17:14.699][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-06-05 18:17:14.701][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-06-05 18:17:14.703][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-06-05 18:17:14.705][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-06-05 18:17:14.706][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-06-05 18:17:14.708][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-06-05 18:17:14.710][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-06-05 18:17:14.712][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-06-05 18:17:14.714][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-06-05 18:17:14.716][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-06-05 18:17:14.718][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-06-05 18:17:14.720][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-06-05 18:17:14.722][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-06-05 18:17:14.724][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-06-05 18:17:14.726][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-06-05 18:17:14.728][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-06-05 18:17:14.730][initialize] This is biodb version 1.9.0.
biodb.DEBUG[2023-06-05 18:17:14.731][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-06-05 18:17:14.732][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.735][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.787][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[2023-06-05 18:17:14.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-06-05 18:17:14.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:14.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:14.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:14.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:14.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:14.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-06-05 18:17:14.893][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.3.0/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-06-05 18:17:14.895][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-06-05 18:17:14.897][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.899][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.900][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.902][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-06-05 18:17:14.903][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.904][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.906][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.907][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-06-05 18:17:14.908][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-06-05 18:17:14.910][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-06-05 18:17:14.911][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.912][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-06-05 18:17:14.914][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-06-05 18:17:14.915][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-06-05 18:17:14.915][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-06-05 18:17:14.915][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-06-05 18:17:14.915][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-06-05 18:17:14.915][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-06-05 18:17:14.915][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-06-05 18:17:14.915][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-06-05 18:17:14.915][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-06-05 18:17:14.915][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-06-05 18:17:14.915][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-06-05 18:17:14.915][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-06-05 18:17:14.917][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-06-05 18:17:14.918][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-06-05 18:17:14.918][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-06-05 18:17:14.918][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-06-05 18:17:14.920][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-06-05 18:17:14.921][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:14.922][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:14.924][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-06-05 18:17:14.925][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-06-05 18:17:14.926][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-06-05 18:17:14.927][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-06-05 18:17:14.929][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-06-05 18:17:14.929][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-06-05 18:17:14.930][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-06-05 18:17:14.931][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-06-05 18:17:14.933][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-06-05 18:17:14.934][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-06-05 18:17:14.934][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-06-05 18:17:14.936][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-06-05 18:17:14.938][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-06-05 18:17:14.940][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-06-05 18:17:14.942][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-06-05 18:17:14.944][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-06-05 18:17:14.947][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-06-05 18:17:14.951][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-06-05 18:17:14.953][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-06-05 18:17:14.954][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-06-05 18:17:14.956][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-06-05 18:17:14.958][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-06-05 18:17:14.959][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-06-05 18:17:14.961][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-06-05 18:17:14.962][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-06-05 18:17:14.964][biodb::testThat]
biodb.INFO [2023-06-05 18:17:14.965][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2023-06-05 18:17:14.967][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-06-05 18:17:14.968][biodb::testThat]
biodb.DEBUG[2023-06-05 18:17:14.972][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-06-05 18:17:14.977][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:14.979][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-06-05 18:17:14.980][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:14.982][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-06-05 18:17:14.986][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-06-05 18:17:14.998][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-06-05 18:17:15.000][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2023-06-05 18:17:15.002][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:15.004][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2023-06-05 18:17:15.008][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2023-06-05 18:17:15.010][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-06-05 18:17:15.012][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2023-06-05 18:17:15.013][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-06-05 18:17:15.016][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2023-06-05 18:17:15.018][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-06-05 18:17:15.041][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-06-05 18:17:15.043][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-06-05 18:17:15.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-06-05 18:17:15.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:15.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:15.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:15.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:15.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:15.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-06-05 18:17:15.063][ef$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:15.064][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:15.065][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.067][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:15.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:15.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.078][ef$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:15.079][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:15.080][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.081][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.083][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-06-05 18:17:15.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-06-05 18:17:15.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.093][ef$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:15.094][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:15.095][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.097][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.099][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-06-05 18:17:15.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-06-05 18:17:15.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.108][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-06-05 18:17:15.109][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-06-05 18:17:15.110][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.112][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.114][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-06-05 18:17:15.115][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-06-05 18:17:15.116][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.118][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.119][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:15.121][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:15.122][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.123][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.125][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:15.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-06-05 18:17:15.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.134][ef$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:15.136][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:15.137][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.138][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.140][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-06-05 18:17:15.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-06-05 18:17:15.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.149][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:15.151][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:15.152][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.154][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:15.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-06-05 18:17:15.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.165][ef$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:15.166][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:15.168][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.169][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.171][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-06-05 18:17:15.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-06-05 18:17:15.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.180][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:15.182][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:15.183][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.184][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.186][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-06-05 18:17:15.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-06-05 18:17:15.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.196][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:15.197][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:15.199][ef$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.200][ef$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.202][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-06-05 18:17:15.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-06-05 18:17:15.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:15.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:15.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:15.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:15.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:15.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:15.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-06-05 18:17:15.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-06-05 18:17:15.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:15.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:15.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:15.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:15.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:15.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:15.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:15.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:15.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:15.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:15.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-06-05 18:17:15.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-06-05 18:17:15.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-06-05 18:17:15.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-06-05 18:17:15.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-06-05 18:17:15.280][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2023-06-05 18:17:15.282][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-06-05 18:17:15.283][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-06-05 18:17:15.285][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-06-05 18:17:15.286][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-06-05 18:17:15.287][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-06-05 18:17:15.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-06-05 18:17:15.290][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-06-05 18:17:15.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-06-05 18:17:15.292][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-06-05 18:17:15.293][FUN] Functions in observer 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 340 ]
> 
> proc.time()
   user  system elapsed 
 23.035   0.664  37.381

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn1.0590.0521.121
ChebiEntry0.2660.0040.270