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This page was generated on 2023-10-16 11:35:13 -0400 (Mon, 16 Oct 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.2 LTS)x86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4626
palomino3Windows Server 2022 Datacenterx644.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" 4379
merida1macOS 12.6.4 Montereyx86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4395
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 195/2230HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.6.0  (landing page)
Pierrick Roger
Snapshot Date: 2023-10-15 14:00:13 -0400 (Sun, 15 Oct 2023)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_17
git_last_commit: f213a8b
git_last_commit_date: 2023-04-25 11:32:59 -0400 (Tue, 25 Apr 2023)
nebbiolo1Linux (Ubuntu 22.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.6.4 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson2macOS 12.6.1 Monterey / arm64see weekly results here

CHECK results for biodbChebi on nebbiolo1


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.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results

Summary

Package: biodbChebi
Version: 1.6.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings biodbChebi_1.6.0.tar.gz
StartedAt: 2023-10-15 19:35:17 -0400 (Sun, 15 Oct 2023)
EndedAt: 2023-10-15 19:37:10 -0400 (Sun, 15 Oct 2023)
EllapsedTime: 112.3 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings biodbChebi_1.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/biodbChebi.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
* running under: Ubuntu 22.04.3 LTS
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.6.0’
* 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/bbs-3.17-bioc/R/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/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 4.3.1 (2023-06-16) -- "Beagle Scouts"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-pc-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 [2023-10-15 19:36:02.231][biodb::testContext]
biodb.INFO [2023-10-15 19:36:02.233][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 19:36:02.234][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-10-15 19:36:02.235][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 19:36:02.236][biodb::testContext]
biodb.INFO [2023-10-15 19:36:02.244][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-15 19:36:02.247][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-10-15 19:36:02.255][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 19:36:02.256][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-15 19:36:02.258][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-15 19:36:02.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.262][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-15 19:36:02.283][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-15 19:36:02.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.287][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-15 19:36:02.288][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-15 19:36:02.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.292][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-15 19:36:02.293][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-15 19:36:02.294][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-15 19:36:02.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.298][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-15 19:36:02.300][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-15 19:36:02.301][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-15 19:36:02.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.305][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-15 19:36:02.306][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-15 19:36:02.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.310][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-15 19:36:02.311][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-15 19:36:02.312][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-15 19:36:02.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.316][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-15 19:36:02.317][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-15 19:36:02.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.320][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[2023-10-15 19:36:02.321][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-15 19:36:02.322][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-15 19:36:02.323][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-15 19:36:02.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.327][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-15 19:36:02.328][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-15 19:36:02.329][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-15 19:36:02.330][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-15 19:36:02.332][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-15 19:36:02.333][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-15 19:36:02.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.337][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-15 19:36:02.338][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-15 19:36:02.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.342][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-15 19:36:02.343][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-15 19:36:02.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.347][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-15 19:36:02.348][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-15 19:36:02.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.352][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-15 19:36:02.353][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-15 19:36:02.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.357][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-15 19:36:02.358][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-15 19:36:02.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.367][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-15 19:36:02.370][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-15 19:36:02.376][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-15 19:36:02.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.380][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-15 19:36:02.381][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-15 19:36:02.382][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-15 19:36:02.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.391][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-15 19:36:02.431][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.449][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-10-15 19:36:02.450][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.452][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:02.453][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.454][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.455][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.456][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.457][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 19:36:02.458][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:02.459][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.481][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-15 19:36:02.483][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:02.484][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.485][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.486][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 19:36:02.486][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 19:36:02.486][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 19:36:02.486][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 19:36:02.486][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 19:36:02.487][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:02.488][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:02.489][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:02.490][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:02.491][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:02.492][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:02.493][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.494][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.495][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:02.496][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:02.497][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.498][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.499][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-15 19:36:02.501][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.502][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 19:36:02.503][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.504][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:02.505][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.506][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.507][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.508][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.509][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 19:36:02.510][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:02.511][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.512][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-15 19:36:02.513][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:02.515][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.516][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.517][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 19:36:02.517][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 19:36:02.517][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 19:36:02.517][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 19:36:02.517][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 19:36:02.518][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:02.519][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:02.520][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:02.521][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:02.522][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:02.523][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:02.524][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.525][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.526][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:02.527][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:02.528][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.529][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.531][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-15 19:36:02.533][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.534][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-10-15 19:36:02.535][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.536][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:02.537][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.538][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.539][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.540][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.541][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 19:36:02.542][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:02.543][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.544][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-15 19:36:02.546][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:02.547][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.548][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.549][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.550][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:02.551][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:02.552][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:02.553][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:02.554][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:02.555][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:02.556][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.557][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.558][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:02.559][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:02.560][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.561][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.562][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-15 19:36:02.564][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.565][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 19:36:02.566][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.567][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:02.568][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.569][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.570][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.571][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.572][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 19:36:02.573][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:02.574][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.575][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-15 19:36:02.576][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:02.577][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.578][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.579][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.580][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:02.581][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:02.582][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:02.583][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:02.584][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:02.585][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:02.586][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.587][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.588][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:02.589][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:02.590][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.591][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:02.596][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 19:36:02.597][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.603][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[2023-10-15 19:36:02.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.617][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[2023-10-15 19:36:02.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.636][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[2023-10-15 19:36:02.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.679][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-15 19:36:02.684][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-15 19:36:02.686][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-15 19:36:02.687][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-15 19:36:02.689][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 19:36:02.690][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-15 19:36:02.691][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-15 19:36:02.693][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-15 19:36:02.694][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-15 19:36:02.695][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-15 19:36:02.697][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 19:36:02.698][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-15 19:36:02.700][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-15 19:36:02.701][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-15 19:36:02.702][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-15 19:36:02.704][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 19:36:02.705][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-15 19:36:02.706][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-15 19:36:02.708][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 19:36:02.709][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-15 19:36:02.711][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-15 19:36:02.712][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-15 19:36:02.713][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-15 19:36:02.715][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-15 19:36:02.716][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-15 19:36:02.717][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-15 19:36:02.719][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-15 19:36:02.720][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-15 19:36:02.722][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-15 19:36:02.723][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-15 19:36:02.724][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-15 19:36:02.726][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-15 19:36:02.727][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-15 19:36:02.728][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-15 19:36:02.729][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-15 19:36:02.731][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-15 19:36:02.732][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-15 19:36:02.733][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-15 19:36:02.735][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-15 19:36:02.736][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-15 19:36:02.737][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-15 19:36:02.739][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-15 19:36:02.740][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-15 19:36:02.741][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-15 19:36:02.743][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-15 19:36:02.744][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-15 19:36:02.745][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-15 19:36:02.747][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-15 19:36:02.748][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-15 19:36:02.750][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-15 19:36:02.751][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-15 19:36:02.753][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-15 19:36:02.760][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-15 19:36:02.761][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-15 19:36:02.763][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-15 19:36:02.764][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-15 19:36:02.765][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-15 19:36:02.766][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-15 19:36:02.768][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-15 19:36:02.769][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-15 19:36:02.770][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-15 19:36:02.772][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-15 19:36:02.773][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-15 19:36:02.774][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-15 19:36:02.776][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-15 19:36:02.777][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-15 19:36:02.778][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 19:36:02.780][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 19:36:02.781][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-15 19:36:02.782][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-15 19:36:02.783][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-15 19:36:02.785][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-15 19:36:02.786][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-15 19:36:02.787][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-15 19:36:02.789][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-15 19:36:02.790][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-15 19:36:02.791][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-15 19:36:02.792][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-15 19:36:02.794][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-15 19:36:02.795][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-15 19:36:02.797][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-15 19:36:02.798][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-15 19:36:02.799][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-15 19:36:02.805][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-15 19:36:02.807][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-15 19:36:02.810][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 19:36:02.811][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.813][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.841][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[2023-10-15 19:36:02.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.847][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[2023-10-15 19:36:02.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.853][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.DEBUG[2023-10-15 19:36:02.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.889][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[2023-10-15 19:36:02.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:02.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:02.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:02.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:02.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:02.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:02.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:02.921][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-10-15 19:36:02.929][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-10-15 19:36:02.931][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.933][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.934][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.935][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:02.936][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.936][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.937][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.938][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-10-15 19:36:02.939][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-10-15 19:36:02.941][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:02.941][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.942][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-10-15 19:36:02.943][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:02.944][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-10-15 19:36:02.944][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-10-15 19:36:02.944][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-10-15 19:36:02.944][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-10-15 19:36:02.944][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-10-15 19:36:02.944][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-10-15 19:36:02.944][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-10-15 19:36:02.944][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-10-15 19:36:02.944][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-10-15 19:36:02.944][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-10-15 19:36:02.944][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-10-15 19:36:02.946][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:02.947][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 19:36:02.947][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 19:36:02.947][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 19:36:02.948][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-10-15 19:36:02.949][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:02.949][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:02.950][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:02.951][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:02.952][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:02.953][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:02.954][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-10-15 19:36:02.954][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-10-15 19:36:02.955][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:02.956][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:02.957][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:02.958][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-10-15 19:36:02.958][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-10-15 19:36:02.964][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 19:36:02.966][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 19:36:02.967][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-10-15 19:36:02.969][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 19:36:02.970][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 19:36:02.972][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 19:36:02.997][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-10-15 19:36:02.998][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-10-15 19:36:03.003][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-10-15 19:36:03.007][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-10-15 19:36:03.012][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 19:36:03.013][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 19:36:03.014][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-10-15 19:36:03.015][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-10-15 19:36:03.033][biodb::testThat]
biodb.INFO [2023-10-15 19:36:03.034][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2023-10-15 19:36:03.035][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:03.036][biodb::testThat]
biodb.TRACE[2023-10-15 19:36:03.040][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2023-10-15 19:36:03.041][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:03.045][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:03.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:03.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:03.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:03.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:03.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:03.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:03.072][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.TRACE[2023-10-15 19:36:03.081][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.083][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.084][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.084][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.102][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:03.103][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:03.104][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.105][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.130][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:03.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:03.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.134][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:03.135][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:03.136][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.137][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.138][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:03.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:03.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.142][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:03.143][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:03.144][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.145][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:03.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:03.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.150][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.151][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.152][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.153][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.158][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.159][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.160][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.161][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.162][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.166][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:03.167][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.168][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.169][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.170][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:03.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.174][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.175][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.176][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.177][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.182][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:03.183][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:03.184][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.185][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.187][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:03.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:03.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.191][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:03.192][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.193][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.194][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.195][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:03.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.199][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:03.200][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:03.201][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.202][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.203][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:03.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:03.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:03.285][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2023-10-15 19:36:03.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:03.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:03.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:03.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:03.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.334][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 19:36:03.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 19:36:03.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.338][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 19:36:03.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 19:36:03.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.342][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-15 19:36:03.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-15 19:36:03.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.346][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-15 19:36:03.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-15 19:36:03.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.453][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.454][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.455][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.456][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.481][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.482][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.483][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.484][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:03.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.503][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:03.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:03.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.507][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:03.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:03.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.511][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:03.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:03.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.515][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:03.516][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:03.517][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.518][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.519][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:03.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:03.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.531][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:03.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:03.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.536][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:03.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:03.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.540][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:03.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:03.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.543][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:03.545][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:03.545][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.546][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.547][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:03.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:03.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.560][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.572][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.573][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.574][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.575][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.601][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.602][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.603][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.603][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.617][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:03.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:03.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.621][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:03.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:03.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.625][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:03.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:03.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.629][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:03.630][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:03.631][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.632][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.633][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:03.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:03.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.646][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.650][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.654][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.658][ef$get] Asked field names are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.659][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.660][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.661][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.662][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.675][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.679][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.683][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.687][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.688][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.689][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.690][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.691][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.704][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:03.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:03.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.708][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:03.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:03.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.712][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:03.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:03.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.716][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:03.717][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:03.718][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.719][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.749][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:03.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:03.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.767][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.771][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.775][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.776][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.777][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.778][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.779][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.792][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:03.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:03.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.796][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:03.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:03.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.800][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:03.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:03.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.804][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:03.805][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:03.806][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.807][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:03.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:03.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.821][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.822][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.823][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.824][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.830][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:03.831][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:03.832][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.833][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.838][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:03.839][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:03.840][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.841][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.846][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:03.847][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:03.848][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.849][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.855][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.856][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:03.856][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.857][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.863][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.864][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:03.865][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.866][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.871][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.872][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:03.873][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.874][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.879][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.881][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:03.881][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.882][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.888][ef$get] Asked field names are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.889][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:03.890][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.891][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.896][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:03.897][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:03.898][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.899][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.905][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:03.906][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:03.907][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.908][ef$get] fields variable is a list.
biodb.INFO [2023-10-15 19:36:03.918][biodb::testThat]
biodb.INFO [2023-10-15 19:36:03.919][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-10-15 19:36:03.920][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:03.921][biodb::testThat]
biodb.DEBUG[2023-10-15 19:36:03.934][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2023-10-15 19:36:03.942][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:03.946][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2023-10-15 19:36:03.947][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:03.949][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2023-10-15 19:36:03.950][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:03.977][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:03.979][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:03.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:03.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:03.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:03.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:03.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:03.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:03.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:03.993][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.994][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.995][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:03.996][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:03.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:03.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:03.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.017][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:04.018][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:04.019][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.020][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.021][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:04.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:04.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.025][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:04.026][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:04.027][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.028][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.029][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:04.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:04.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.033][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:04.034][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:04.035][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.036][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:04.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:04.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.041][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:04.042][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:04.043][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.044][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:04.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:04.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.049][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:04.050][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:04.051][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.052][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.053][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:04.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:04.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.057][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:04.058][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:04.059][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.060][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.061][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:04.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:04.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.065][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:04.066][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:04.067][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.068][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:04.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:04.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.073][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:04.074][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:04.075][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.076][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.077][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:04.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:04.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.081][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:04.082][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:04.083][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.084][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.085][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:04.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:04.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.090][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:04.092][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:04.093][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.094][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.095][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:04.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:04.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:04.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:04.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:04.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:04.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:04.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:04.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:04.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:04.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:04.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:04.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:04.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:04.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:04.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:04.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:04.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:04.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:04.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:04.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:04.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:04.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:04.140][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2023-10-15 19:36:04.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-10-15 19:36:04.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-10-15 19:36:04.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-10-15 19:36:04.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-10-15 19:36:04.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-10-15 19:36:04.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-10-15 19:36:04.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 19:36:04.161][biodb::testThat]
biodb.INFO [2023-10-15 19:36:04.162][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2023-10-15 19:36:04.163][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:04.164][biodb::testThat]
biodb.TRACE[2023-10-15 19:36:04.168][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:04.169][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:04.170][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.170][ef$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:04.172][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2023-10-15 19:36:04.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:04.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:04.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:04.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:04.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.212][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:04.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:04.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:04.219][function(conn, opt)] With value "squalene".
biodb.DEBUG[2023-10-15 19:36:04.224][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-10-15 19:36:04.243][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:04.258][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-10-15 19:36:04.259][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:04.261][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-10-15 19:36:04.283][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[2023-10-15 19:36:04.286][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:04.288][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 19:36:04.289][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:04.291][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-10-15 19:36:04.293][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2023-10-15 19:36:04.308][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:04.309][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:04.310][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.311][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.312][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:04.313][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:04.314][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.315][ef$get] fields variable is a list.
biodb.INFO [2023-10-15 19:36:04.321][biodb::testThat]
biodb.INFO [2023-10-15 19:36:04.322][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2023-10-15 19:36:04.323][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:04.324][biodb::testThat]
biodb.TRACE[2023-10-15 19:36:04.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:04.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:04.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:04.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:04.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.357][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:04.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:04.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:04.424][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[2023-10-15 19:36:04.427][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:04.429][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 19:36:04.431][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:04.432][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2023-10-15 19:36:04.451][biodb::testThat]
biodb.INFO [2023-10-15 19:36:04.452][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2023-10-15 19:36:04.453][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:04.454][biodb::testThat]
biodb.TRACE[2023-10-15 19:36:04.474][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:04.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:04.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.478][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:04.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:04.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:04.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:04.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:04.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:04.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:04.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:04.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:04.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:04.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.497][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 19:36:04.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 19:36:04.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.501][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 19:36:04.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 19:36:04.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.504][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-15 19:36:04.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-15 19:36:04.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.508][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-15 19:36:04.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-15 19:36:04.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:04.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:04.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.532][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:04.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:04.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:04.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:04.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:04.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:04.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:04.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:04.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:04.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:04.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.551][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 19:36:04.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 19:36:04.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.554][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 19:36:04.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 19:36:04.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.558][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-15 19:36:04.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-15 19:36:04.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:04.562][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-15 19:36:04.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-15 19:36:04.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:04.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 19:36:04.572][biodb::testThat]
biodb.INFO [2023-10-15 19:36:04.573][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-10-15 19:36:04.574][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:04.575][biodb::testThat]
biodb.INFO [2023-10-15 19:36:04.587][biodb::testThat]
biodb.INFO [2023-10-15 19:36:04.588][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-10-15 19:36:04.589][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:04.590][biodb::testThat]
biodb.INFO [2023-10-15 19:36:04.599][biodb::testThat]
biodb.INFO [2023-10-15 19:36:04.600][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2023-10-15 19:36:04.601][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:04.602][biodb::testThat]
biodb.DEBUG[2023-10-15 19:36:04.605][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2023-10-15 19:36:05.363][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2023-10-15 19:36:06.960][biodb::testThat]
biodb.INFO [2023-10-15 19:36:06.962][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2023-10-15 19:36:06.963][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:06.964][biodb::testThat]
biodb.DEBUG[2023-10-15 19:36:07.551][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[2023-10-15 19:36:08.105][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:08.106][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:08.107][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.108][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.110][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:08.111][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:08.112][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.113][ef$get] fields variable is a list.
biodb.INFO [2023-10-15 19:36:08.115][biodb::testThat]
biodb.INFO [2023-10-15 19:36:08.116][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2023-10-15 19:36:08.117][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:08.118][biodb::testThat]
biodb.TRACE[2023-10-15 19:36:08.133][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:08.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:08.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.137][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:08.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:08.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:08.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:08.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:08.247][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[2023-10-15 19:36:08.251][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:08.252][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 19:36:08.254][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:08.255][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-10-15 19:36:08.317][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[2023-10-15 19:36:08.320][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:08.321][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 19:36:08.323][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:08.324][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2023-10-15 19:36:08.349][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-15 19:36:08.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-15 19:36:08.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:08.414][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[2023-10-15 19:36:08.418][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:08.419][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-10-15 19:36:08.421][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:08.422][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-10-15 19:36:08.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:08.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:08.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:08.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:08.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:08.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:08.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:08.438][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2023-10-15 19:36:08.486][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:08.488][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2023-10-15 19:36:08.489][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:08.491][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2023-10-15 19:36:08.492][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:08.493][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:08.495][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:08.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:08.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:08.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:08.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:08.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:08.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:08.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:08.510][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.511][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.512][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.513][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.519][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:08.520][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:08.521][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.522][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.524][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:08.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:08.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.528][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:08.529][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:08.530][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.531][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.533][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:08.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:08.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.537][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:08.538][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:08.539][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.540][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.542][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:08.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:08.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.546][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:08.547][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:08.548][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.549][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.550][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:08.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:08.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.554][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:08.555][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:08.556][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.557][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.558][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:08.560][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.561][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.561][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.563][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:08.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.567][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:08.568][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:08.569][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.570][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:08.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:08.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.575][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:08.582][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:08.583][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.584][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.585][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:08.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:08.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.589][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:08.590][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:08.591][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.592][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.593][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:08.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:08.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.597][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:08.598][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:08.599][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.600][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.601][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:08.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:08.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:08.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:08.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:08.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:08.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:08.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:08.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:08.648][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2023-10-15 19:36:08.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:08.671][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[2023-10-15 19:36:08.674][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:08.676][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-10-15 19:36:08.677][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:08.679][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-10-15 19:36:08.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:08.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:08.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:08.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:08.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:08.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:08.707][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:08.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:08.722][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[2023-10-15 19:36:08.725][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:08.726][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-10-15 19:36:08.728][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:08.729][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-10-15 19:36:08.758][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[2023-10-15 19:36:08.761][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:08.763][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 19:36:08.764][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:08.766][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-10-15 19:36:08.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:08.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:08.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:08.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:08.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:08.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:08.785][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:08.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:08.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:08.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:08.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:08.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:08.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:08.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:08.809][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[2023-10-15 19:36:08.810][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2023-10-15 19:36:08.811][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:08.812][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2023-10-15 19:36:08.814][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:08.815][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2023-10-15 19:36:08.816][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:08.818][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:08.819][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:08.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:08.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:08.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:08.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:08.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:08.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:08.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:08.833][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.834][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.835][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.836][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.841][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:08.842][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:08.843][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.844][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.845][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:08.846][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:08.847][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.848][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.849][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:08.850][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:08.851][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.852][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.854][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:08.855][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:08.855][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.856][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.858][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:08.859][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:08.860][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.860][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.862][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:08.863][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.864][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.865][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.866][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:08.867][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:08.868][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.869][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.870][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:08.871][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:08.872][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.873][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.874][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:08.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:08.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.878][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:08.879][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:08.880][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.881][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.882][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:08.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:08.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.886][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:08.887][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:08.888][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.889][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:08.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:08.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:08.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:08.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:08.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:08.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:08.929][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2023-10-15 19:36:08.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:08.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:08.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:08.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:08.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:08.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:08.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:08.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:08.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:08.969][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2023-10-15 19:36:08.970][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:08.971][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2023-10-15 19:36:08.973][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:08.974][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2023-10-15 19:36:08.975][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:08.976][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:08.978][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:08.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:08.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:08.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:08.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:08.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:08.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:08.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:08.993][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.994][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.995][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:08.996][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:08.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:08.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:08.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.001][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:09.002][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:09.003][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.004][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.005][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:09.006][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:09.007][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.008][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.010][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:09.011][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:09.012][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.013][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.014][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.015][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.016][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.017][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.018][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.019][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.020][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.021][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.022][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:09.023][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.024][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.025][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.026][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.027][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.028][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.029][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.030][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:09.031][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:09.032][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.033][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.035][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:09.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:09.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.039][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:09.040][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:09.041][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.041][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.043][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:09.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:09.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.047][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:09.048][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:09.049][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.049][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:09.089][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2023-10-15 19:36:09.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:09.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:09.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:09.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:09.118][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:09.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:09.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:09.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:09.122][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2023-10-15 19:36:09.123][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:09.124][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2023-10-15 19:36:09.125][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:09.127][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2023-10-15 19:36:09.128][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:09.129][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:09.130][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:09.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:09.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:09.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:09.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:09.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:09.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:09.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:09.149][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.150][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.151][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.152][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.157][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:09.158][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:09.159][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.160][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.161][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:09.162][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:09.163][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.164][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.165][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:09.166][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:09.167][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.168][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.170][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.171][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.171][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.172][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.174][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.175][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.175][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.176][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.178][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:09.179][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.179][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.180][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.182][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.183][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.183][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.184][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.186][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:09.187][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:09.188][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.188][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.190][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:09.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:09.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.194][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:09.195][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:09.196][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.197][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.198][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:09.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:09.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.202][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:09.203][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:09.204][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.205][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:09.246][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2023-10-15 19:36:09.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:09.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:09.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:09.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:09.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:09.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:09.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:09.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:09.279][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2023-10-15 19:36:09.280][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:09.281][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2023-10-15 19:36:09.282][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:09.284][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2023-10-15 19:36:09.285][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:09.286][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:09.287][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:09.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:09.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:09.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:09.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:09.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:09.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:09.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:09.302][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.303][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.304][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.305][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.310][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:09.311][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:09.312][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.313][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.315][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:09.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:09.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.319][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:09.320][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:09.321][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.322][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.323][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:09.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:09.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.332][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:09.333][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:09.334][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.335][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:09.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:09.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.340][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.341][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.342][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.343][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.345][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.349][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.350][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.350][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.351][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.353][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.357][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:09.358][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.359][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.360][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.361][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:09.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.365][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.366][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.367][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.368][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.374][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:09.375][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:09.376][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.377][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.378][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:09.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:09.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.382][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:09.383][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:09.384][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.385][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.387][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:09.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:09.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.391][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:09.392][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:09.393][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.393][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.395][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:09.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:09.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:09.438][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2023-10-15 19:36:09.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:09.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:09.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:09.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:09.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:09.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:09.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:09.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:09.462][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2023-10-15 19:36:09.463][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:09.465][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2023-10-15 19:36:09.466][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:09.468][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2023-10-15 19:36:09.469][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:09.470][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:09.471][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:09.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:09.473][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:09.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:09.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:09.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:09.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:09.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:09.485][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.486][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.487][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.488][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.494][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:09.495][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:09.496][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.497][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.498][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:09.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:09.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.502][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:09.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:09.504][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.505][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.506][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:09.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:09.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.516][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:09.517][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:09.518][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.519][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.520][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:09.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:09.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.524][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.525][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.526][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.527][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.532][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.533][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.534][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.535][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.536][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.540][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:09.541][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.542][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.543][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.544][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:09.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.548][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.549][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.550][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.551][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.556][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:09.558][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:09.558][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.559][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.561][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:09.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:09.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.565][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:09.566][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:09.567][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.568][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.569][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:09.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:09.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.573][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:09.574][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:09.575][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.576][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.577][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:09.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:09.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:09.621][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2023-10-15 19:36:09.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:09.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:09.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:09.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:09.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:09.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:09.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:09.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:09.652][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2023-10-15 19:36:09.653][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:09.655][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2023-10-15 19:36:09.657][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:09.659][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2023-10-15 19:36:09.660][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:09.661][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:09.663][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:09.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:09.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:09.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:09.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:09.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:09.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:09.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:09.680][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.681][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.682][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.683][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.689][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:09.690][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:09.691][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.692][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.694][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:09.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:09.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.699][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:09.700][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:09.701][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.702][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.703][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:09.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:09.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.708][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:09.709][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:09.725][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.726][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:09.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:09.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.732][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.733][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.734][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.735][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.736][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.740][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.742][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.743][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.744][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.745][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:09.746][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.747][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.748][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.749][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:09.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.754][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.755][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.756][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.757][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.763][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:09.764][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:09.765][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.766][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.768][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:09.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:09.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.772][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:09.773][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:09.774][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.775][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.776][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:09.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:09.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.781][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:09.782][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:09.783][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.784][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.785][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:09.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:09.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:09.831][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2023-10-15 19:36:09.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:09.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:09.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:09.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:09.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:09.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:09.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:09.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:09.857][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2023-10-15 19:36:09.858][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:09.859][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2023-10-15 19:36:09.861][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:09.862][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2023-10-15 19:36:09.863][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:09.864][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:09.866][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:09.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:09.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:09.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:09.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:09.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:09.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:09.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:09.880][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.881][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.882][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.883][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.888][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:09.889][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:09.890][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.891][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.892][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:09.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:09.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.896][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:09.897][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:09.898][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.899][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.900][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:09.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:09.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.904][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:09.905][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:09.906][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.907][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:09.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:09.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.917][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.918][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.919][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.920][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:09.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.925][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.926][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:09.927][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.928][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.929][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:09.930][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.931][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.932][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.933][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:09.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:09.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.937][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.938][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.939][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.940][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:09.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.945][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:09.946][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:09.947][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.948][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.950][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:09.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:09.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.954][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:09.955][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:09.956][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.957][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.958][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:09.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:09.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.962][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:09.963][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:09.964][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.965][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.966][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:09.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:09.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:09.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:09.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:09.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:09.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:09.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:10.009][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2023-10-15 19:36:10.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:10.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:10.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:10.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:10.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:10.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:10.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:10.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:10.034][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2023-10-15 19:36:10.035][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:10.037][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2023-10-15 19:36:10.038][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:10.040][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2023-10-15 19:36:10.041][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:10.042][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:10.043][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:10.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:10.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:10.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:10.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:10.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:10.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:10.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:10.058][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.059][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.060][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.061][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.066][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:10.067][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:10.068][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.069][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.070][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:10.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:10.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.074][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:10.075][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:10.076][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.077][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.078][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:10.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:10.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.082][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:10.083][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:10.084][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.085][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.087][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:10.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:10.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.091][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.092][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.092][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.093][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.104][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:10.105][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:10.106][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.106][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.108][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:10.109][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.110][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.111][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.112][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:10.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.116][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.117][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.118][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.119][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.124][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:10.125][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:10.126][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.127][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.128][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:10.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:10.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.132][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:10.133][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:10.134][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.135][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.136][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:10.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:10.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.140][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:10.141][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:10.142][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.143][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.144][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:10.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:10.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:10.186][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2023-10-15 19:36:10.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:10.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:10.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:10.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:10.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:10.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:10.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:10.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:10.210][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2023-10-15 19:36:10.211][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:10.212][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2023-10-15 19:36:10.214][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:10.215][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2023-10-15 19:36:10.216][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:10.218][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:10.219][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:10.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:10.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:10.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:10.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:10.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:10.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:10.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:10.233][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.234][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.235][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.236][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.241][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:10.242][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:10.243][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.244][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.245][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:10.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:10.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.249][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:10.250][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:10.251][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.252][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.253][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:10.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:10.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.257][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:10.258][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:10.259][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.260][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:10.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:10.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.265][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.266][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.267][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.268][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.273][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:10.274][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:10.275][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.281][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.282][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:10.283][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.284][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.285][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.286][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:10.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.290][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.291][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.292][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.293][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.298][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:10.299][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:10.300][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.301][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:10.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:10.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.306][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:10.307][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:10.308][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.309][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.310][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:10.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:10.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.314][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:10.315][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:10.316][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.317][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.318][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:10.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:10.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:10.361][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2023-10-15 19:36:10.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:10.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:10.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:10.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:10.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:10.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:10.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:10.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:10.385][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2023-10-15 19:36:10.386][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:10.388][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2023-10-15 19:36:10.389][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:10.391][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2023-10-15 19:36:10.392][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:10.393][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:10.394][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:10.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:10.397][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:10.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:10.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:10.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:10.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:10.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:10.409][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.410][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.411][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.411][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.417][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:10.418][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:10.418][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.419][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.421][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:10.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:10.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.425][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:10.426][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:10.427][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.427][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.429][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:10.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:10.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.433][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:10.434][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:10.434][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.435][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:10.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:10.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.441][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.442][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.442][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.443][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.445][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.449][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:10.450][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:10.450][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.451][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.453][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:10.454][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.455][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.456][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.462][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:10.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.466][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.467][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.468][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.469][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.474][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:10.475][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:10.476][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.477][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.478][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:10.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:10.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.482][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:10.483][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:10.484][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.485][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.486][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:10.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:10.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.490][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:10.491][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:10.492][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.493][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.494][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:10.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:10.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:10.536][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2023-10-15 19:36:10.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:10.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:10.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:10.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:10.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:10.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:10.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:10.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:10.560][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2023-10-15 19:36:10.561][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:10.562][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2023-10-15 19:36:10.563][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:10.565][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2023-10-15 19:36:10.566][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:10.567][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:10.568][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:10.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:10.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:10.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:10.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:10.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:10.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:10.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:10.582][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.583][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.584][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.585][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.590][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:10.591][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:10.592][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.593][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.594][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:10.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:10.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.598][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:10.599][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:10.600][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.601][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.602][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:10.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:10.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.606][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:10.607][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:10.608][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.609][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.610][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.611][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.612][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.613][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.614][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:10.615][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:10.616][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.617][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.618][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:10.619][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.620][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.621][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.622][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:10.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.626][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.627][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.628][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.629][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.634][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:10.640][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:10.641][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.642][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.643][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:10.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:10.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.647][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:10.648][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:10.649][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.650][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.651][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:10.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:10.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.655][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:10.656][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:10.657][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.658][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:10.698][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2023-10-15 19:36:10.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:10.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:10.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:10.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:10.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:10.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:10.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:10.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:10.722][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2023-10-15 19:36:10.723][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:10.724][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2023-10-15 19:36:10.725][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:10.727][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2023-10-15 19:36:10.728][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:10.729][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:10.730][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:10.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:10.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:10.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:10.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:10.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:10.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:10.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:10.744][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.745][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.746][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.747][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.752][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:10.753][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:10.754][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.755][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.756][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:10.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:10.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.760][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:10.761][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:10.762][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.763][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.764][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:10.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:10.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.768][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:10.769][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:10.770][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.771][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.772][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.773][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.774][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.775][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.776][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:10.777][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:10.778][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.779][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.780][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:10.781][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.782][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.783][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.785][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:10.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.788][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.789][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.790][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.791][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.796][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:10.797][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:10.798][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.799][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.801][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:10.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:10.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.805][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:10.806][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:10.807][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.808][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.809][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:10.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:10.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.813][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:10.819][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:10.820][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.821][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:10.861][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2023-10-15 19:36:10.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:10.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:10.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:10.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:10.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:10.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:10.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:10.884][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[2023-10-15 19:36:10.885][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2023-10-15 19:36:10.886][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:10.888][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2023-10-15 19:36:10.889][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:10.891][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2023-10-15 19:36:10.892][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:10.893][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:10.894][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:10.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:10.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:10.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:10.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:10.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:10.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:10.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:10.909][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.910][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.911][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.912][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:10.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:10.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.917][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:10.918][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:10.919][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.920][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.921][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:10.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:10.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.925][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:10.926][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:10.927][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.928][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.929][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:10.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:10.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.933][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:10.934][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:10.935][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.936][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:10.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:10.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.941][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.942][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.943][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.944][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:10.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.949][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:10.950][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:10.951][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.952][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.953][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:10.954][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.955][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.956][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.957][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:10.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:10.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.961][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.962][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.963][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.964][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:10.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.969][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:10.970][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:10.971][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.972][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:10.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:10.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.977][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:10.978][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:10.979][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.980][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.981][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:10.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:10.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.985][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:10.986][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:10.987][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.988][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.989][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:10.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:10.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:10.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:10.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:10.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.036][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2023-10-15 19:36:11.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.060][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[2023-10-15 19:36:11.061][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2023-10-15 19:36:11.062][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:11.063][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2023-10-15 19:36:11.065][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:11.066][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2023-10-15 19:36:11.067][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:11.069][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:11.070][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:11.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:11.084][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.085][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.086][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.087][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.092][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:11.093][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:11.094][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.095][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.096][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:11.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:11.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.100][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:11.101][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:11.102][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.103][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.104][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:11.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:11.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.108][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:11.109][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:11.110][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.110][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.112][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:11.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:11.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.116][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.117][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.117][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.118][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.123][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:11.124][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:11.125][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.126][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.127][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:11.128][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.129][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.130][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.132][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:11.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.135][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.136][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.137][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.138][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.144][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:11.145][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:11.145][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.146][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:11.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:11.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.152][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:11.153][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:11.153][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.154][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.156][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:11.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:11.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.159][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:11.160][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:11.161][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.162][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.163][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:11.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:11.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.236][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2023-10-15 19:36:11.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:11.259][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2023-10-15 19:36:11.260][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:11.262][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2023-10-15 19:36:11.264][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:11.265][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2023-10-15 19:36:11.266][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:11.267][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:11.268][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:11.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:11.283][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.284][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.285][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.286][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.291][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:11.292][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:11.293][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.294][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.295][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:11.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:11.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.299][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:11.300][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:11.301][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.302][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.303][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:11.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:11.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.307][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:11.308][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:11.309][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.310][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:11.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:11.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.316][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.317][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.318][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.319][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.324][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:11.325][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:11.326][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.327][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.328][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:11.329][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.330][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.331][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.332][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:11.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.336][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.337][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.342][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.344][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.350][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:11.352][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:11.353][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.354][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.355][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:11.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:11.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.359][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:11.361][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:11.362][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.363][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.364][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:11.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:11.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.368][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:11.369][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:11.370][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.371][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.373][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:11.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:11.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.438][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2023-10-15 19:36:11.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.464][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[2023-10-15 19:36:11.465][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2023-10-15 19:36:11.466][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:11.468][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2023-10-15 19:36:11.469][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:11.471][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2023-10-15 19:36:11.472][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:11.473][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:11.474][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:11.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:11.490][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.491][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.492][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.493][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.498][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:11.499][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:11.500][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.501][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.503][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:11.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:11.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.507][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:11.508][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:11.509][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.510][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.511][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:11.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:11.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.515][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:11.516][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:11.517][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.518][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.520][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:11.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:11.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.524][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.525][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.526][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.527][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.532][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:11.534][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:11.535][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.535][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.537][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:11.538][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.539][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.540][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.541][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:11.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.545][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.546][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.547][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.548][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.554][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:11.555][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:11.556][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.557][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:11.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:11.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.562][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:11.563][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:11.564][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.565][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.566][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:11.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:11.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.570][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:11.571][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:11.572][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.573][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.574][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:11.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:11.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.622][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2023-10-15 19:36:11.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:11.646][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2023-10-15 19:36:11.647][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:11.649][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2023-10-15 19:36:11.650][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:11.652][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2023-10-15 19:36:11.653][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:11.654][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:11.655][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:11.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:11.669][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.670][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.671][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.672][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.677][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:11.678][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:11.679][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.680][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.681][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:11.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:11.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.685][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:11.686][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:11.687][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.688][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.689][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:11.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:11.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.693][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:11.694][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:11.695][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.696][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:11.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:11.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.701][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.702][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.703][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.703][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:11.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.708][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:11.710][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:11.710][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.711][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.713][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:11.714][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.714][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.715][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.717][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:11.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.721][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.722][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.722][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.723][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:11.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.729][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:11.730][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:11.731][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.732][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.733][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:11.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:11.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.737][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:11.738][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:11.739][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.740][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.741][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:11.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:11.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.745][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:11.746][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:11.747][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.748][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.749][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:11.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:11.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:11.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:11.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:11.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.797][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2023-10-15 19:36:11.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.833][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[2023-10-15 19:36:11.836][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:11.837][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 19:36:11.838][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:11.840][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-10-15 19:36:11.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.853][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[2023-10-15 19:36:11.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:11.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.907][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:11.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.937][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.937][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.TRACE[2023-10-15 19:36:11.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:11.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:11.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:11.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:11.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:11.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:11.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:11.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:11.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:11.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:11.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:11.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:11.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.020][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:12.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.044][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:12.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.067][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:12.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:12.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:12.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.135][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:12.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.163][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.TRACE[2023-10-15 19:36:12.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.172][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.186][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.TRACE[2023-10-15 19:36:12.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:12.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.232][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[2023-10-15 19:36:12.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.255][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.TRACE[2023-10-15 19:36:12.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.278][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:12.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.358][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[2023-10-15 19:36:12.361][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:12.363][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2023-10-15 19:36:12.364][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:12.365][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2023-10-15 19:36:12.368][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[2023-10-15 19:36:12.371][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:12.373][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2023-10-15 19:36:12.374][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:12.375][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2023-10-15 19:36:12.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:12.389][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2023-10-15 19:36:12.390][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:12.391][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2023-10-15 19:36:12.393][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:12.394][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2023-10-15 19:36:12.395][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:12.396][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:12.398][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:12.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:12.412][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.413][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.414][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.419][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:12.420][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:12.421][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.422][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.424][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:12.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:12.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.428][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:12.429][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:12.430][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.430][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.432][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:12.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:12.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.436][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:12.437][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:12.438][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.439][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.440][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:12.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:12.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.444][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:12.445][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:12.446][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.447][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.448][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:12.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:12.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.452][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:12.453][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:12.454][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.455][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.456][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:12.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:12.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.460][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:12.461][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.462][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.463][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.464][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:12.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.468][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.469][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.470][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.471][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.476][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:12.477][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:12.478][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.479][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.480][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:12.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:12.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.484][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:12.485][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:12.486][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.487][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.493][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:12.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:12.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.498][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:12.499][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:12.500][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.500][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.502][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:12.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:12.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:12.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:12.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:12.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:12.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:12.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:12.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.544][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2023-10-15 19:36:12.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:12.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.590][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[2023-10-15 19:36:12.591][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2023-10-15 19:36:12.592][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:12.594][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2023-10-15 19:36:12.595][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:12.597][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2023-10-15 19:36:12.598][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:12.599][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:12.600][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:12.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:12.614][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.615][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.616][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.617][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.622][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:12.623][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:12.624][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.625][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.626][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:12.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:12.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.630][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:12.631][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:12.632][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.633][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:12.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:12.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.638][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:12.639][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:12.640][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.641][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:12.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:12.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.646][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:12.647][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:12.648][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.649][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:12.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:12.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.654][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:12.655][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:12.656][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.657][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.658][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:12.659][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.660][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.661][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.662][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:12.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:12.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.666][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.667][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.673][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.674][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.679][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:12.680][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:12.681][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.682][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.683][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:12.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:12.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.687][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:12.688][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:12.689][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.690][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.691][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:12.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:12.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.695][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:12.696][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:12.697][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.698][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.699][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:12.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:12.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:12.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:12.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:12.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:12.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:12.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:12.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:12.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:12.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.741][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2023-10-15 19:36:12.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.777][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[2023-10-15 19:36:12.780][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:12.781][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 19:36:12.782][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:12.784][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-10-15 19:36:12.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.797][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.TRACE[2023-10-15 19:36:12.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.821][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.TRACE[2023-10-15 19:36:12.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.829][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.856][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:12.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.887][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:12.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.892][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:12.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:12.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:12.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.977][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:12.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:12.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:12.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:12.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:12.986][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.TRACE[2023-10-15 19:36:12.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:12.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:12.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:12.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:12.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:12.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:13.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:13.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:13.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:13.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:13.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:13.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:13.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:13.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:13.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:13.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:13.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:13.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:13.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:13.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:13.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:13.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:13.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:13.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:13.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:13.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:13.059][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[2023-10-15 19:36:13.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:13.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:13.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:13.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:13.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:13.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:13.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:13.082][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:13.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:13.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:13.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:13.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:13.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:13.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:13.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:13.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:13.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:13.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:13.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:13.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:13.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:13.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:13.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:13.128][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:13.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:13.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:13.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:13.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:13.150][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:13.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:13.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:13.152][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:13.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:13.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:13.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:13.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:13.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:13.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:13.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:13.176][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.TRACE[2023-10-15 19:36:13.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:13.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:13.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:13.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:13.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:13.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:13.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:13.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:13.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:13.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:13.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:13.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:13.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:13.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:13.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:13.232][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[2023-10-15 19:36:13.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:13.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:13.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:13.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:13.271][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.INFO [2023-10-15 19:36:13.274][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2023-10-15 19:36:13.275][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:13.276][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:13.278][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2023-10-15 19:36:13.913][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2023-10-15 19:36:14.539][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:14.544][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2023-10-15 19:36:14.574][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2023-10-15 19:36:14.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:14.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:14.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:14.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:14.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:14.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:14.604][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:14.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:14.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:14.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:14.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:14.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:14.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:14.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:14.648][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.TRACE[2023-10-15 19:36:14.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.672][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:14.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:14.688][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:14.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:14.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:14.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:14.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:14.705][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:14.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:14.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:14.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:14.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:14.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:14.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:14.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:14.766][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:14.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:14.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:14.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:14.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:14.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:14.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:14.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:14.805][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[2023-10-15 19:36:14.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:14.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:14.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:14.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:14.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:14.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:14.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:14.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:14.839][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:14.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:14.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:14.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:14.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:14.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:14.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:14.867][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.TRACE[2023-10-15 19:36:14.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:14.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:14.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:14.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:14.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:14.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:14.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:14.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:14.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:14.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:14.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:14.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:14.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:14.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:14.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:14.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:14.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:14.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:14.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:14.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:14.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:14.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:14.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:14.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:14.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:14.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:14.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:14.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:14.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:14.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:14.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:14.982][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:14.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:14.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:14.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:14.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:14.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:15.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:15.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:15.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:15.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:15.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:15.012][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.TRACE[2023-10-15 19:36:15.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:15.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:15.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:15.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:15.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:15.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:15.038][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:15.039][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:15.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:15.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:15.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:15.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:15.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:15.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:15.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:15.066][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.TRACE[2023-10-15 19:36:15.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:15.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:15.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:15.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:15.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:15.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:15.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:15.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:15.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:15.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:15.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:15.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:15.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:15.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:15.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:15.122][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:15.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:15.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:15.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:15.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:15.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:15.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:15.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:15.149][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.TRACE[2023-10-15 19:36:15.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:15.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:15.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:15.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:15.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:15.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:15.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:15.182][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[2023-10-15 19:36:15.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:15.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.220][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-15 19:36:15.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-15 19:36:15.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 19:36:15.236][biodb::testThat]
biodb.INFO [2023-10-15 19:36:15.237][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2023-10-15 19:36:15.239][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:15.240][biodb::testThat]
biodb.TRACE[2023-10-15 19:36:15.244][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-15 19:36:15.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-15 19:36:15.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:15.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:15.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:15.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:15.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:15.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:15.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:15.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:15.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:15.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:15.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:15.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:15.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:15.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:15.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:15.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:15.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:15.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:15.283][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[2023-10-15 19:36:15.304][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:15.306][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:15.325][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2023-10-15 19:36:15.838][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2023-10-15 19:36:16.347][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:16.351][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2023-10-15 19:36:16.356][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2023-10-15 19:36:16.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:16.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:16.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:16.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:16.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:16.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:16.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:16.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:16.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:16.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:16.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:16.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:16.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:16.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:16.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:16.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:16.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:16.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:16.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:16.393][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:16.422][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:16.424][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:16.426][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2023-10-15 19:36:16.919][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2023-10-15 19:36:17.417][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:17.421][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2023-10-15 19:36:17.428][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2023-10-15 19:36:17.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:17.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:17.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:17.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:17.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:17.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:17.449][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:17.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:17.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:17.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:17.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:17.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:17.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:17.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:17.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:17.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:17.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:17.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:17.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:17.470][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[2023-10-15 19:36:17.475][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:17.477][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:17.480][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2023-10-15 19:36:18.015][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2023-10-15 19:36:18.508][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:18.510][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content"
biodb.TRACE[2023-10-15 19:36:18.515][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.request"
biodb.DEBUG[2023-10-15 19:36:18.518][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 19:36:18.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:18.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:18.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:18.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:18.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:18.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:18.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:18.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.544][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:18.545][private$selectFields]
biodb.TRACE[2023-10-15 19:36:18.546][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:18.547][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:18.548][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:18.549][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.550][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.552][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.553][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.554][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.555][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.556][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.557][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.558][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:18.559][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:18.560][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.561][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.562][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.563][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.564][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:18.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.594][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-10-15 19:36:18.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:18.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:18.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:18.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:18.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:18.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:18.609][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[2023-10-15 19:36:18.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.619][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:18.620][private$selectFields]
biodb.TRACE[2023-10-15 19:36:18.621][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:18.622][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:18.623][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:18.624][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.625][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.626][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.627][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.628][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.629][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.630][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.631][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.632][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:18.633][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:18.634][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.635][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.636][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.637][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.638][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:18.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:18.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.652][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-10-15 19:36:18.664][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 19:36:18.666][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 19:36:18.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:18.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:18.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:18.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:18.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:18.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:18.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:18.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:18.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:18.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:18.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:18.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:18.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:18.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:18.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:18.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:18.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:18.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:18.765][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[2023-10-15 19:36:18.768][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:18.769][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:18.771][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2023-10-15 19:36:19.278][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2023-10-15 19:36:19.778][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:19.782][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2023-10-15 19:36:19.790][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2023-10-15 19:36:19.799][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:19.806][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:19.808][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:19.811][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2023-10-15 19:36:20.327][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2023-10-15 19:36:20.819][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:20.822][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2023-10-15 19:36:20.826][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2023-10-15 19:36:20.830][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:20.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:20.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:20.842][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:20.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:20.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:20.846][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.TRACE[2023-10-15 19:36:20.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:20.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:20.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:20.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:20.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:20.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:20.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:20.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:20.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:20.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:20.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:20.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:20.902][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.TRACE[2023-10-15 19:36:20.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:20.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:20.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:20.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:20.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:20.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:20.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:20.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:20.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:20.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:20.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:20.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:20.928][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:20.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:20.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:20.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:20.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:20.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:20.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:20.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:20.971][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 19:36:20.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:20.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:20.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:21.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.018][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.019][private$selectFields]
biodb.TRACE[2023-10-15 19:36:21.020][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:21.021][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:21.022][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.023][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.024][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.025][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.026][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.027][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.028][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.030][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.031][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.032][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.034][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.035][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.036][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.037][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.039][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.040][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:21.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.053][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-10-15 19:36:21.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:21.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.114][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.115][private$selectFields]
biodb.TRACE[2023-10-15 19:36:21.116][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:21.117][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:21.118][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.119][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.120][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.121][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.122][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.123][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.125][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.126][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.127][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.128][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.141][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.143][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.144][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.145][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.146][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.147][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:21.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.162][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-10-15 19:36:21.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.174][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.TRACE[2023-10-15 19:36:21.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.183][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.184][private$selectFields]
biodb.TRACE[2023-10-15 19:36:21.185][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:21.186][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:21.187][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.188][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.189][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.190][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.191][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.194][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.195][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.196][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.197][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.198][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.199][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.200][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.201][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.202][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:21.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.215][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-10-15 19:36:21.216][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 19:36:21.217][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 19:36:21.228][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-15 19:36:21.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-15 19:36:21.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 19:36:21.238][biodb::testThat]
biodb.INFO [2023-10-15 19:36:21.239][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2023-10-15 19:36:21.240][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:21.241][biodb::testThat]
biodb.TRACE[2023-10-15 19:36:21.244][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-15 19:36:21.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-15 19:36:21.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:21.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:21.286][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[2023-10-15 19:36:21.289][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:21.291][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-10-15 19:36:21.292][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:21.293][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-10-15 19:36:21.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.306][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.TRACE[2023-10-15 19:36:21.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:21.321][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[2023-10-15 19:36:21.325][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:21.327][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-10-15 19:36:21.329][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:21.331][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-10-15 19:36:21.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.345][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:21.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:21.361][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[2023-10-15 19:36:21.365][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:21.366][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-10-15 19:36:21.368][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:21.369][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-10-15 19:36:21.372][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 19:36:21.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.385][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:21.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.395][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.396][private$selectFields]
biodb.TRACE[2023-10-15 19:36:21.397][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:21.399][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:21.400][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.401][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.402][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.403][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.404][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.405][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.406][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.407][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.408][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.409][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.410][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.411][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.412][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.413][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.414][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.415][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:21.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.436][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-10-15 19:36:21.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.452][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:21.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.493][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.494][private$selectFields]
biodb.TRACE[2023-10-15 19:36:21.495][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:21.496][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:21.497][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.499][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.501][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.502][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.503][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.504][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.505][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.506][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.508][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.509][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.510][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.511][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.512][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.513][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.514][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:21.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.529][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-10-15 19:36:21.530][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 19:36:21.532][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 19:36:21.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:21.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:21.584][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:21.589][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:21.591][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-10-15 19:36:21.593][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:21.595][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-10-15 19:36:21.601][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:21.606][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:21.607][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-10-15 19:36:21.609][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:21.611][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-10-15 19:36:21.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:21.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:21.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.652][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:21.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:21.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:21.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:21.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:21.703][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 19:36:21.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.725][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.727][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:21.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.739][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.740][private$selectFields]
biodb.TRACE[2023-10-15 19:36:21.741][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:21.743][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:21.744][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.745][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.746][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.747][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.748][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.749][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.750][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.751][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.752][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.753][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.754][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.755][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.756][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.757][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.758][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.759][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:21.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.773][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-10-15 19:36:21.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.785][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:21.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.794][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.795][private$selectFields]
biodb.TRACE[2023-10-15 19:36:21.796][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:21.797][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:21.798][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.799][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.800][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.801][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.802][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.803][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.804][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.805][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.806][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.807][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.808][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.809][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.810][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.811][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.812][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.813][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:21.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.826][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-10-15 19:36:21.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:21.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.851][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.852][private$selectFields]
biodb.TRACE[2023-10-15 19:36:21.853][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:21.854][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:21.855][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.856][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.858][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.859][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.861][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.862][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.863][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.864][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.866][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:21.867][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.868][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.869][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.870][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.871][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:21.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:21.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.885][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-10-15 19:36:21.886][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 19:36:21.887][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 19:36:21.897][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-15 19:36:21.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-15 19:36:21.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 19:36:21.910][biodb::testThat]
biodb.INFO [2023-10-15 19:36:21.911][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2023-10-15 19:36:21.912][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:21.913][biodb::testThat]
biodb.TRACE[2023-10-15 19:36:21.916][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-15 19:36:21.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-15 19:36:21.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:21.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:21.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:21.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:21.965][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:21.969][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:21.971][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-10-15 19:36:21.973][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:21.975][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-10-15 19:36:21.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:21.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:21.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:21.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:21.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:21.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:21.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:21.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:21.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:22.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:22.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:22.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:22.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:22.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:22.010][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:22.013][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:22.015][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-10-15 19:36:22.016][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:22.017][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-10-15 19:36:22.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:22.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:22.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:22.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:22.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:22.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:22.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:22.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:22.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:22.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:22.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:22.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:22.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:22.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:22.048][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:22.052][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:22.053][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-10-15 19:36:22.054][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:22.056][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-10-15 19:36:22.059][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 19:36:22.060][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:22.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:22.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:22.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:22.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:22.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:22.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:22.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.082][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.083][private$selectFields]
biodb.TRACE[2023-10-15 19:36:22.084][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:22.085][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:22.086][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.087][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.088][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.089][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.090][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.091][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.092][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.093][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.094][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.095][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.096][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.097][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.098][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.098][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.099][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.100][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:22.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.114][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-10-15 19:36:22.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:22.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:22.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:22.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:22.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:22.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:22.135][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:22.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.146][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.147][private$selectFields]
biodb.TRACE[2023-10-15 19:36:22.148][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:22.149][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:22.150][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.151][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.152][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.153][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.154][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.155][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.156][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.157][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.158][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.159][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.160][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.161][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.162][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.163][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.164][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.165][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:22.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.180][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-10-15 19:36:22.181][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 19:36:22.182][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 19:36:22.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:22.225][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:22.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:22.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:22.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:22.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:22.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:22.239][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[2023-10-15 19:36:22.242][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[2023-10-15 19:36:22.245][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:22.247][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-10-15 19:36:22.248][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:22.249][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-10-15 19:36:22.253][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[2023-10-15 19:36:22.256][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:22.258][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-10-15 19:36:22.259][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:22.260][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-10-15 19:36:22.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:22.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:22.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:22.272][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:22.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:22.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:22.275][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.TRACE[2023-10-15 19:36:22.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:22.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:22.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:22.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:22.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:22.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:22.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:22.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:22.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:22.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:22.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:22.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:22.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:22.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:22.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:22.332][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:22.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.343][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:22.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:22.347][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 19:36:22.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:22.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:22.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:22.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:22.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:22.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:22.361][FUN] Functions in observer BiodbConfig: [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[2023-10-15 19:36:22.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.372][private$selectFields]
biodb.TRACE[2023-10-15 19:36:22.373][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:22.374][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:22.375][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.378][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.380][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.381][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.382][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.383][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.384][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.385][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.386][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.387][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.388][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.389][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.390][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.391][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:22.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.404][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-10-15 19:36:22.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:22.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:22.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:22.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:22.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:22.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:22.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:22.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.426][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.427][private$selectFields]
biodb.TRACE[2023-10-15 19:36:22.428][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:22.429][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:22.430][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.432][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.433][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.434][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.435][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.436][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.438][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.439][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.440][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.441][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.442][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.443][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.444][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.445][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.446][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.447][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:22.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.461][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-10-15 19:36:22.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:22.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:22.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:22.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:22.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:22.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:22.473][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.TRACE[2023-10-15 19:36:22.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.483][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.484][private$selectFields]
biodb.TRACE[2023-10-15 19:36:22.485][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 19:36:22.486][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 19:36:22.487][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.488][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.489][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.490][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.491][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.492][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.494][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.495][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.496][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.497][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 19:36:22.497][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.499][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.499][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.500][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.501][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 19:36:22.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:22.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:22.521][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-10-15 19:36:22.522][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 19:36:22.523][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 19:36:22.552][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-15 19:36:22.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-15 19:36:22.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:22.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 19:36:22.561][biodb::testThat]
biodb.INFO [2023-10-15 19:36:22.562][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2023-10-15 19:36:22.563][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:22.564][biodb::testThat]
biodb.DEBUG[2023-10-15 19:36:22.566][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-10-15 19:36:22.567][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:22.569][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-10-15 19:36:22.570][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-10-15 19:36:22.572][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-10-15 19:36:22.573][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:22.574][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-10-15 19:36:22.575][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2023-10-15 19:36:22.576][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2023-10-15 19:36:22.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:22.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:22.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:22.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:22.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:22.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:22.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:22.592][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2023-10-15 19:36:22.595][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:22.596][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:22.597][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2023-10-15 19:36:23.090][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2023-10-15 19:36:23.621][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:23.624][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2023-10-15 19:36:23.629][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2023-10-15 19:36:23.632][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2023-10-15 19:36:23.633][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2023-10-15 19:36:23.635][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:23.636][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:23.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:23.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:23.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:23.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:23.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:23.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:23.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:23.658][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:23.660][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:23.661][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.662][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:23.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:23.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.669][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:23.670][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:23.672][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.673][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.674][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:23.676][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:23.677][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.678][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.680][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:23.681][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:23.683][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.684][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.686][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:23.687][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:23.688][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.689][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.690][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:23.691][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:23.693][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.694][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.695][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:23.696][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:23.698][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.699][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.700][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:23.701][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:23.703][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.704][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.705][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:23.706][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:23.707][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.708][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.710][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:23.711][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:23.712][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.713][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.714][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:23.715][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:23.716][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.717][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:23.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:23.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:23.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:23.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:23.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:23.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:23.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:23.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:23.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:23.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:23.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:23.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:23.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:23.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:23.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:23.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:23.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:23.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:23.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:23.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:23.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:23.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:23.789][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2023-10-15 19:36:23.790][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-10-15 19:36:23.802][biodb::testThat]
biodb.INFO [2023-10-15 19:36:23.803][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-10-15 19:36:23.804][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:23.805][biodb::testThat]
biodb.DEBUG[2023-10-15 19:36:23.815][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2023-10-15 19:36:23.817][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2023-10-15 19:36:23.818][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2023-10-15 19:36:23.820][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2023-10-15 19:36:23.821][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2023-10-15 19:36:23.822][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-10-15 19:36:23.823][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:23.824][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-10-15 19:36:23.825][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2023-10-15 19:36:23.826][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2023-10-15 19:36:23.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:23.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:23.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:23.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:23.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:23.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:23.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:23.859][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2023-10-15 19:36:23.862][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:23.863][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:23.864][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2023-10-15 19:36:24.358][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2023-10-15 19:36:24.849][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:24.852][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2023-10-15 19:36:24.857][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2023-10-15 19:36:24.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:24.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:24.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:24.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:24.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:24.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:24.870][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[2023-10-15 19:36:24.872][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2023-10-15 19:36:24.875][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:24.876][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:24.877][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2023-10-15 19:36:25.366][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2023-10-15 19:36:25.858][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:25.861][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2023-10-15 19:36:25.864][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2023-10-15 19:36:25.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:25.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:25.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:25.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:25.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:25.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:25.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:25.878][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2023-10-15 19:36:25.881][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:25.882][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:25.883][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2023-10-15 19:36:26.380][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2023-10-15 19:36:26.867][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:26.869][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2023-10-15 19:36:26.873][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2023-10-15 19:36:26.875][private$doSaveContentToFile] Saving to cache [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2023-10-15 19:36:26.877][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2023-10-15 19:36:26.878][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2023-10-15 19:36:26.879][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:26.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:26.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:26.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:26.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:26.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:26.890][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:26.891][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.TRACE[2023-10-15 19:36:26.893][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:26.894][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:26.907][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.908][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:26.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:26.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.914][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:26.915][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:26.916][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.917][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.918][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:26.920][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:26.921][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.922][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.924][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:26.925][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:26.927][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.928][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.929][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:26.930][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:26.931][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.932][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.933][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:26.934][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:26.935][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.936][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.938][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:26.939][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:26.940][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.941][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.942][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:26.944][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:26.946][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.947][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.949][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:26.951][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:26.952][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.953][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.955][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:26.957][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:26.958][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.960][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.962][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:26.963][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:26.965][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.966][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:26.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:26.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:26.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:26.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:26.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:26.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:26.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:26.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:26.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:26.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:26.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:26.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:26.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:27.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:27.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:27.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:27.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:27.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:27.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:27.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 19:36:27.028][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.030][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.031][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.033][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.040][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:27.042][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:27.043][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.045][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.047][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:27.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:27.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.054][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:27.056][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:27.058][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.059][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.061][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:27.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:27.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.065][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:27.067][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:27.068][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.069][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.070][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:27.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:27.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.075][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:27.076][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:27.077][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.078][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:27.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:27.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.084][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:27.085][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:27.086][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.087][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.089][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:27.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:27.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.093][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:27.094][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:27.095][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.096][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.098][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:27.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:27.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.102][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:27.103][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:27.105][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.106][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:27.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:27.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.112][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:27.113][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:27.114][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.115][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.117][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:27.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:27.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.123][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:27.124][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:27.125][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.126][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.128][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:27.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:27.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.132][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:27.134][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:27.135][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.154][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.156][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:27.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:27.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:27.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:27.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:27.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:27.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:27.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:27.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:27.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:27.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:27.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:27.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:27.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:27.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:27.204][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[2023-10-15 19:36:27.207][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.208][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.209][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.210][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.216][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:27.217][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:27.218][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.219][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.220][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:27.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:27.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.224][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:27.225][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:27.226][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.227][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.229][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:27.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:27.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.233][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:27.234][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:27.235][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.236][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.237][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:27.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:27.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.242][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:27.243][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:27.244][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.245][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:27.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:27.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.250][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:27.251][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:27.252][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.253][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.255][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:27.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:27.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.259][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:27.260][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:27.261][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.262][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.263][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:27.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:27.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.267][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:27.268][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:27.269][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.270][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:27.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:27.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.276][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:27.277][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:27.277][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.278][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.280][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:27.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:27.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.284][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:27.285][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:27.286][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.287][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.288][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:27.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:27.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.292][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:27.293][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:27.294][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.295][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.296][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:27.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:27.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:27.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:27.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:27.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:27.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:27.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:27.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:27.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:27.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:27.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:27.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:27.369][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2023-10-15 19:36:27.370][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-10-15 19:36:27.371][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2023-10-15 19:36:27.387][biodb::testThat]
biodb.INFO [2023-10-15 19:36:27.388][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2023-10-15 19:36:27.389][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:27.390][biodb::testThat]
biodb.INFO [2023-10-15 19:36:27.418][biodb::testThat]
biodb.INFO [2023-10-15 19:36:27.419][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2023-10-15 19:36:27.420][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:27.421][biodb::testThat]
biodb.INFO [2023-10-15 19:36:27.432][biodb::testThat]
biodb.INFO [2023-10-15 19:36:27.434][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2023-10-15 19:36:27.435][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:27.436][biodb::testThat]
biodb.DEBUG[2023-10-15 19:36:27.439][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[2023-10-15 19:36:27.443][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:27.444][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:27.446][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2023-10-15 19:36:27.996][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2023-10-15 19:36:28.650][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:28.652][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2023-10-15 19:36:28.656][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2023-10-15 19:36:28.669][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:28.671][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:28.672][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:28.673][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:28.674][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:28.675][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:28.676][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:28.677][ef$get] fields variable is a list.
biodb.INFO [2023-10-15 19:36:28.678][biodb::testThat]
biodb.INFO [2023-10-15 19:36:28.679][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2023-10-15 19:36:28.680][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:28.681][biodb::testThat]
biodb.ERROR[2023-10-15 19:36:28.696][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2023-10-15 19:36:28.712][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2023-10-15 19:36:28.736][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-15 19:36:28.737][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-10-15 19:36:28.738][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-10-15 19:36:28.739][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-15 19:36:28.740][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:28.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:28.742][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:28.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:28.744][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-10-15 19:36:28.755][biodb::testContext]
biodb.INFO [2023-10-15 19:36:28.756][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 19:36:28.757][biodb::testContext] Test context - Test conversions
biodb.INFO [2023-10-15 19:36:28.758][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 19:36:28.759][biodb::testContext]
biodb.INFO [2023-10-15 19:36:28.761][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-15 19:36:28.762][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-10-15 19:36:28.766][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 19:36:28.767][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-15 19:36:28.768][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-15 19:36:28.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.772][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-15 19:36:28.773][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-15 19:36:28.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.777][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-15 19:36:28.778][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-15 19:36:28.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.781][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-15 19:36:28.782][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-15 19:36:28.783][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-15 19:36:28.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.787][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-15 19:36:28.788][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-15 19:36:28.789][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-15 19:36:28.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.792][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-15 19:36:28.793][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-15 19:36:28.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.797][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-15 19:36:28.798][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-15 19:36:28.799][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-15 19:36:28.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.801][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[2023-10-15 19:36:28.802][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-15 19:36:28.803][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-15 19:36:28.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.807][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-15 19:36:28.808][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-15 19:36:28.809][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-15 19:36:28.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.812][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-15 19:36:28.813][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-15 19:36:28.814][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-15 19:36:28.815][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-15 19:36:28.816][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-15 19:36:28.817][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-15 19:36:28.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.821][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-15 19:36:28.822][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-15 19:36:28.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.825][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-15 19:36:28.826][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-15 19:36:28.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.830][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-15 19:36:28.831][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-15 19:36:28.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.834][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[2023-10-15 19:36:28.835][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-15 19:36:28.836][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-15 19:36:28.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.839][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-15 19:36:28.840][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-15 19:36:28.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.843][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.DEBUG[2023-10-15 19:36:28.844][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-15 19:36:28.845][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-15 19:36:28.848][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-15 19:36:28.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.852][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-15 19:36:28.853][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-15 19:36:28.854][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-15 19:36:28.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.857][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[2023-10-15 19:36:28.858][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-15 19:36:28.860][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:28.861][self$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[2023-10-15 19:36:28.862][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.863][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:28.864][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.865][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:28.866][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:28.867][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:28.868][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 19:36:28.869][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:28.870][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.871][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-15 19:36:28.872][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:28.872][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.873][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.874][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 19:36:28.874][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 19:36:28.874][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 19:36:28.874][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 19:36:28.874][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 19:36:28.875][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:28.876][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:28.877][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:28.878][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:28.879][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:28.880][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:28.881][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:28.882][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.883][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:28.884][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:28.885][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:28.886][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.887][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-15 19:36:28.888][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:28.889][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 19:36:28.890][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.891][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:28.892][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.893][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:28.900][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:28.901][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:28.902][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 19:36:28.903][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:28.904][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.905][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-15 19:36:28.906][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:28.907][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.908][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.909][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 19:36:28.909][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 19:36:28.909][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 19:36:28.909][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 19:36:28.909][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 19:36:28.910][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:28.911][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:28.912][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:28.913][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:28.914][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:28.915][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:28.916][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:28.917][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.918][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:28.919][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:28.919][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:28.920][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.922][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-15 19:36:28.923][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.924][self$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[2023-10-15 19:36:28.925][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.926][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:28.927][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.928][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:28.929][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:28.930][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:28.931][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 19:36:28.932][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:28.933][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:28.934][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-15 19:36:28.935][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:28.936][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.937][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.938][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.939][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:28.940][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:28.941][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:28.942][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:28.943][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:28.944][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:28.945][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:28.946][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.947][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:28.948][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:28.949][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:28.950][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.951][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-15 19:36:28.953][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.954][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 19:36:28.955][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.956][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:28.957][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.958][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:28.959][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:28.960][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:28.961][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 19:36:28.962][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:28.963][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:28.964][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-15 19:36:28.965][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:28.966][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.967][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:28.968][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.969][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:28.970][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:28.971][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:28.972][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:28.973][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:28.973][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:28.974][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:28.975][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.976][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:28.977][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:28.978][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:28.979][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:28.980][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 19:36:28.981][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:28.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:28.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:28.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:28.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:28.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:28.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:28.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:28.995][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.DEBUG[2023-10-15 19:36:28.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:28.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:28.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:28.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.043][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[2023-10-15 19:36:29.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.048][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[2023-10-15 19:36:29.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.057][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-15 19:36:29.059][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-15 19:36:29.060][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-15 19:36:29.062][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-15 19:36:29.063][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 19:36:29.064][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-15 19:36:29.072][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-15 19:36:29.073][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-15 19:36:29.075][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-15 19:36:29.077][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-15 19:36:29.078][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 19:36:29.079][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-15 19:36:29.081][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-15 19:36:29.082][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-15 19:36:29.083][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-15 19:36:29.085][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 19:36:29.086][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-15 19:36:29.087][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-15 19:36:29.089][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 19:36:29.090][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-15 19:36:29.091][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-15 19:36:29.093][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-15 19:36:29.094][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-15 19:36:29.095][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-15 19:36:29.097][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-15 19:36:29.098][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-15 19:36:29.100][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-15 19:36:29.101][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-15 19:36:29.102][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-15 19:36:29.104][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-15 19:36:29.105][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-15 19:36:29.106][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-15 19:36:29.108][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-15 19:36:29.109][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-15 19:36:29.111][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-15 19:36:29.112][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-15 19:36:29.113][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-15 19:36:29.115][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-15 19:36:29.116][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-15 19:36:29.117][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-15 19:36:29.119][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-15 19:36:29.120][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-15 19:36:29.122][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-15 19:36:29.123][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-15 19:36:29.124][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-15 19:36:29.126][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-15 19:36:29.127][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-15 19:36:29.128][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-15 19:36:29.130][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-15 19:36:29.131][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-15 19:36:29.133][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-15 19:36:29.134][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-15 19:36:29.135][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-15 19:36:29.137][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-15 19:36:29.138][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-15 19:36:29.139][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-15 19:36:29.141][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-15 19:36:29.142][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-15 19:36:29.144][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-15 19:36:29.145][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-15 19:36:29.146][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-15 19:36:29.148][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-15 19:36:29.149][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-15 19:36:29.151][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-15 19:36:29.152][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-15 19:36:29.153][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-15 19:36:29.155][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 19:36:29.156][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 19:36:29.157][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-15 19:36:29.159][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-15 19:36:29.160][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-15 19:36:29.161][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-15 19:36:29.163][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-15 19:36:29.164][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-15 19:36:29.165][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-15 19:36:29.167][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-15 19:36:29.168][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-15 19:36:29.169][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-15 19:36:29.171][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-15 19:36:29.172][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-15 19:36:29.173][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-15 19:36:29.175][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-15 19:36:29.176][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-15 19:36:29.178][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-15 19:36:29.179][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-15 19:36:29.180][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 19:36:29.181][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.183][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.190][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[2023-10-15 19:36:29.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.215][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[2023-10-15 19:36:29.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.264][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[2023-10-15 19:36:29.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.293][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".
biodb.DEBUG[2023-10-15 19:36:29.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:29.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:29.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:29.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:29.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:29.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:29.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:29.302][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-10-15 19:36:29.304][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-10-15 19:36:29.306][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:29.308][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-15 19:36:29.309][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:29.310][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:29.311][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:29.312][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:29.313][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:29.314][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-10-15 19:36:29.315][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-10-15 19:36:29.316][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:29.317][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:29.318][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-10-15 19:36:29.319][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:29.320][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-10-15 19:36:29.320][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-10-15 19:36:29.320][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-10-15 19:36:29.320][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-10-15 19:36:29.320][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-10-15 19:36:29.320][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-10-15 19:36:29.320][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-10-15 19:36:29.320][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-10-15 19:36:29.320][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-10-15 19:36:29.320][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-10-15 19:36:29.320][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-10-15 19:36:29.322][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:29.323][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 19:36:29.323][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 19:36:29.323][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 19:36:29.324][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-10-15 19:36:29.325][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:29.326][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:29.327][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:29.328][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:29.329][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:29.330][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:29.331][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-10-15 19:36:29.331][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-10-15 19:36:29.332][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:29.333][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:29.334][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:29.335][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-10-15 19:36:29.335][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-10-15 19:36:29.337][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 19:36:29.339][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 19:36:29.340][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-10-15 19:36:29.342][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 19:36:29.343][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 19:36:29.345][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 19:36:29.349][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-10-15 19:36:29.350][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-10-15 19:36:29.351][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-10-15 19:36:29.353][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-10-15 19:36:29.355][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 19:36:29.356][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 19:36:29.357][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-10-15 19:36:29.358][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-10-15 19:36:29.360][biodb::testThat]
biodb.INFO [2023-10-15 19:36:29.361][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2023-10-15 19:36:29.362][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:29.363][biodb::testThat]
biodb.DEBUG[2023-10-15 19:36:29.369][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-10-15 19:36:29.373][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:29.374][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:29.376][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2023-10-15 19:36:29.858][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2023-10-15 19:36:30.547][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.INFO [2023-10-15 19:36:30.551][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2023-10-15 19:36:30.555][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2023-10-15 19:36:30.564][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2023-10-15 19:36:30.574][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:30.582][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:30.585][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:30.589][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2023-10-15 19:36:31.234][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2023-10-15 19:36:31.731][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:31.733][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2023-10-15 19:36:31.737][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2023-10-15 19:36:31.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:31.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:31.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:31.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:31.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:31.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:31.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:31.754][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[2023-10-15 19:36:31.757][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:31.758][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:31.760][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2023-10-15 19:36:32.269][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2023-10-15 19:36:32.756][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:32.759][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2023-10-15 19:36:32.763][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2023-10-15 19:36:32.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:32.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:32.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:32.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:32.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:32.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:32.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:32.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:32.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:32.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:32.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:32.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:32.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:32.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:32.812][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:32.815][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:32.816][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-10-15 19:36:32.817][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:32.819][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-10-15 19:36:32.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:32.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:32.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:32.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:32.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:32.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:32.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:32.832][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:32.835][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:32.837][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-10-15 19:36:32.838][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:32.839][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-10-15 19:36:32.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:32.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:32.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:32.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:32.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:32.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:32.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:32.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:32.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:32.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:32.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:32.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:32.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:32.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:32.866][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:32.869][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:32.871][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-10-15 19:36:32.872][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:32.873][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-10-15 19:36:32.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:32.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:32.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:32.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:32.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:32.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:32.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:32.886][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:32.889][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:32.891][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-10-15 19:36:32.892][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:32.893][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-10-15 19:36:32.895][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:32.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:32.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:32.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:32.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:32.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:32.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:32.906][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:32.909][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:32.910][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:32.912][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2023-10-15 19:36:33.406][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2023-10-15 19:36:33.921][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:33.923][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2023-10-15 19:36:33.927][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2023-10-15 19:36:33.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:33.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:33.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:33.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:33.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:33.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:33.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-10-15 19:36:33.960][biodb::testThat]
biodb.INFO [2023-10-15 19:36:33.961][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2023-10-15 19:36:33.962][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:33.963][biodb::testThat]
biodb.DEBUG[2023-10-15 19:36:33.966][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[2023-10-15 19:36:33.970][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:33.971][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:33.973][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2023-10-15 19:36:34.482][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2023-10-15 19:36:35.011][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:35.014][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2023-10-15 19:36:35.020][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2023-10-15 19:36:35.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:35.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:35.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:35.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:35.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:35.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:35.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:35.041][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:35.045][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:35.046][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:35.048][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2023-10-15 19:36:35.544][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2023-10-15 19:36:36.051][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:36.055][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2023-10-15 19:36:36.059][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2023-10-15 19:36:36.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:36.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.075][FUN] Functions in observer BiodbConfig: [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 [2023-10-15 19:36:36.081][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-15 19:36:36.083][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-10-15 19:36:36.084][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-10-15 19:36:36.085][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-15 19:36:36.086][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.088][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.090][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.091][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.INFO [2023-10-15 19:36:36.096][biodb::testContext]
biodb.INFO [2023-10-15 19:36:36.097][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 19:36:36.098][biodb::testContext] Test context - Test web services
biodb.INFO [2023-10-15 19:36:36.099][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 19:36:36.100][biodb::testContext]
biodb.INFO [2023-10-15 19:36:36.102][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-15 19:36:36.104][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-10-15 19:36:36.108][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 19:36:36.110][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-15 19:36:36.111][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-15 19:36:36.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.115][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-15 19:36:36.116][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-15 19:36:36.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.120][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-15 19:36:36.121][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-15 19:36:36.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.125][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-15 19:36:36.126][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-15 19:36:36.128][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-15 19:36:36.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.131][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-15 19:36:36.132][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-15 19:36:36.134][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-15 19:36:36.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.137][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-15 19:36:36.139][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-15 19:36:36.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.141][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[2023-10-15 19:36:36.142][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-15 19:36:36.143][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-15 19:36:36.145][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-15 19:36:36.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.148][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-15 19:36:36.149][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-15 19:36:36.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.153][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-15 19:36:36.154][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-15 19:36:36.155][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-15 19:36:36.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.159][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-15 19:36:36.160][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-15 19:36:36.161][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-15 19:36:36.163][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-15 19:36:36.164][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-15 19:36:36.165][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-15 19:36:36.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.168][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[2023-10-15 19:36:36.189][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-15 19:36:36.191][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-15 19:36:36.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.196][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-15 19:36:36.197][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-15 19:36:36.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.200][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[2023-10-15 19:36:36.201][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-15 19:36:36.202][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-15 19:36:36.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.206][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-15 19:36:36.207][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-15 19:36:36.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.211][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-15 19:36:36.212][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-15 19:36:36.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.216][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-15 19:36:36.217][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-15 19:36:36.220][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-15 19:36:36.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.223][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[2023-10-15 19:36:36.224][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-15 19:36:36.225][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-15 19:36:36.227][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-15 19:36:36.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.231][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-15 19:36:36.233][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.234][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-10-15 19:36:36.235][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.236][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:36.237][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.238][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.239][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.240][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.241][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 19:36:36.242][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:36.243][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.244][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-15 19:36:36.245][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:36.246][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.247][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.248][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 19:36:36.248][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 19:36:36.248][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 19:36:36.248][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 19:36:36.248][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 19:36:36.249][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:36.250][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:36.251][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:36.252][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:36.253][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:36.254][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:36.255][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.256][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.257][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:36.258][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:36.259][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.260][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.261][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-15 19:36:36.263][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.264][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 19:36:36.265][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.266][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:36.267][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.268][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.269][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.270][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.271][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 19:36:36.272][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:36.273][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.274][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-15 19:36:36.275][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:36.276][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.277][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.278][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 19:36:36.278][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 19:36:36.278][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 19:36:36.278][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 19:36:36.278][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 19:36:36.279][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:36.280][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:36.281][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:36.282][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:36.283][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:36.283][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:36.284][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.285][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.286][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:36.287][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:36.288][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.289][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.290][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-15 19:36:36.292][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.293][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-10-15 19:36:36.294][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.295][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:36.296][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.297][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.298][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.299][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.300][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 19:36:36.301][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:36.302][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.303][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-15 19:36:36.304][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:36.305][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.306][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.307][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.308][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:36.309][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:36.310][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:36.311][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:36.311][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:36.312][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:36.313][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.314][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.315][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:36.316][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:36.317][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.318][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.319][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-15 19:36:36.321][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.322][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 19:36:36.323][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.324][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:36.325][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.326][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.327][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.328][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.329][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 19:36:36.330][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:36.331][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.332][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-15 19:36:36.333][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:36.334][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.335][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.336][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.337][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:36.338][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:36.338][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:36.339][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:36.340][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:36.341][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:36.342][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.343][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.344][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:36.345][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:36.346][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.347][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:36.348][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 19:36:36.349][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.413][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[2023-10-15 19:36:36.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.422][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[2023-10-15 19:36:36.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.431][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-15 19:36:36.433][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-15 19:36:36.434][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-15 19:36:36.436][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-15 19:36:36.437][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 19:36:36.438][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-15 19:36:36.440][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-15 19:36:36.441][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-15 19:36:36.443][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-15 19:36:36.444][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-15 19:36:36.445][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 19:36:36.447][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-15 19:36:36.448][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-15 19:36:36.449][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-15 19:36:36.451][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-15 19:36:36.452][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 19:36:36.453][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-15 19:36:36.455][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-15 19:36:36.456][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 19:36:36.457][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-15 19:36:36.459][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-15 19:36:36.460][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-15 19:36:36.461][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-15 19:36:36.463][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-15 19:36:36.464][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-15 19:36:36.465][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-15 19:36:36.467][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-15 19:36:36.468][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-15 19:36:36.469][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-15 19:36:36.471][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-15 19:36:36.472][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-15 19:36:36.474][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-15 19:36:36.475][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-15 19:36:36.476][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-15 19:36:36.478][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-15 19:36:36.479][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-15 19:36:36.480][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-15 19:36:36.482][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-15 19:36:36.483][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-15 19:36:36.484][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-15 19:36:36.486][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-15 19:36:36.487][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-15 19:36:36.489][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-15 19:36:36.490][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-15 19:36:36.491][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-15 19:36:36.493][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-15 19:36:36.494][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-15 19:36:36.495][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-15 19:36:36.497][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-15 19:36:36.498][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-15 19:36:36.499][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-15 19:36:36.501][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-15 19:36:36.502][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-15 19:36:36.503][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-15 19:36:36.505][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-15 19:36:36.506][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-15 19:36:36.507][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-15 19:36:36.509][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-15 19:36:36.510][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-15 19:36:36.511][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-15 19:36:36.513][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-15 19:36:36.514][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-15 19:36:36.515][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-15 19:36:36.517][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-15 19:36:36.518][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-15 19:36:36.519][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-15 19:36:36.521][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 19:36:36.522][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 19:36:36.529][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-15 19:36:36.531][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-15 19:36:36.532][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-15 19:36:36.534][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-15 19:36:36.535][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-15 19:36:36.536][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-15 19:36:36.538][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-15 19:36:36.539][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-15 19:36:36.540][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-15 19:36:36.542][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-15 19:36:36.543][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-15 19:36:36.544][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-15 19:36:36.546][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-15 19:36:36.547][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-15 19:36:36.548][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-15 19:36:36.550][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-15 19:36:36.551][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-15 19:36:36.552][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 19:36:36.553][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.555][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.617][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[2023-10-15 19:36:36.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.623][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[2023-10-15 19:36:36.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.629][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[2023-10-15 19:36:36.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.636][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[2023-10-15 19:36:36.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.642][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[2023-10-15 19:36:36.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.648][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[2023-10-15 19:36:36.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:36.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:36.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:36.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:36.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:36.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:36.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:36.661][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-10-15 19:36:36.663][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-10-15 19:36:36.664][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.665][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.666][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.667][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:36.668][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.669][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.670][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.671][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-10-15 19:36:36.672][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-10-15 19:36:36.673][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:36.674][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.675][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-10-15 19:36:36.676][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:36.677][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-10-15 19:36:36.677][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-10-15 19:36:36.677][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-10-15 19:36:36.677][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-10-15 19:36:36.677][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-10-15 19:36:36.677][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-10-15 19:36:36.677][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-10-15 19:36:36.677][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-10-15 19:36:36.677][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-10-15 19:36:36.677][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-10-15 19:36:36.677][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-10-15 19:36:36.678][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:36.679][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 19:36:36.679][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 19:36:36.679][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 19:36:36.680][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-10-15 19:36:36.681][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:36.682][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:36.683][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:36.684][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:36.685][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:36.685][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:36.686][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-10-15 19:36:36.686][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-10-15 19:36:36.692][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:36.693][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:36.695][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:36.696][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-10-15 19:36:36.696][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-10-15 19:36:36.697][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 19:36:36.699][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 19:36:36.700][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-10-15 19:36:36.702][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 19:36:36.703][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 19:36:36.705][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 19:36:36.708][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-10-15 19:36:36.709][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-10-15 19:36:36.710][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-10-15 19:36:36.712][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-10-15 19:36:36.713][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 19:36:36.714][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 19:36:36.715][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-10-15 19:36:36.716][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-10-15 19:36:36.717][biodb::testThat]
biodb.INFO [2023-10-15 19:36:36.718][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2023-10-15 19:36:36.719][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:36.720][biodb::testThat]
biodb.DEBUG[2023-10-15 19:36:36.723][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-10-15 19:36:36.727][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:36.728][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-10-15 19:36:36.729][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:36.731][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-10-15 19:36:36.734][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[2023-10-15 19:36:36.737][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:36.738][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:36.739][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2023-10-15 19:36:37.227][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2023-10-15 19:36:37.738][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:37.741][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2023-10-15 19:36:37.747][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2023-10-15 19:36:37.761][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-15 19:36:37.762][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-10-15 19:36:37.764][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-10-15 19:36:37.765][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-15 19:36:37.767][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:37.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:37.769][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:37.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:37.772][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-10-15 19:36:37.778][biodb::testContext]
biodb.INFO [2023-10-15 19:36:37.780][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 19:36:37.781][biodb::testContext] Test context - Non regression tests
biodb.INFO [2023-10-15 19:36:37.782][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 19:36:37.784][biodb::testContext]
biodb.INFO [2023-10-15 19:36:37.787][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-15 19:36:37.789][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-10-15 19:36:37.795][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 19:36:37.796][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-15 19:36:37.798][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-15 19:36:37.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:37.803][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-15 19:36:37.805][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-15 19:36:37.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:37.810][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-15 19:36:37.812][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-15 19:36:37.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:37.817][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-15 19:36:37.819][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-15 19:36:37.820][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-15 19:36:37.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:37.826][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-15 19:36:37.827][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-15 19:36:37.829][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-15 19:36:37.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.833][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.DEBUG[2023-10-15 19:36:37.834][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-15 19:36:37.836][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-15 19:36:37.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:37.841][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-15 19:36:37.843][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-15 19:36:37.844][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-15 19:36:37.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:37.851][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-15 19:36:37.852][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-15 19:36:37.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:37.856][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-15 19:36:37.857][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-15 19:36:37.858][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-15 19:36:37.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.861][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[2023-10-15 19:36:37.862][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-15 19:36:37.863][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-15 19:36:37.864][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-15 19:36:37.865][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-15 19:36:37.866][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-15 19:36:37.867][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-15 19:36:37.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:37.870][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-15 19:36:37.871][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-15 19:36:37.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.874][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[2023-10-15 19:36:37.875][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-15 19:36:37.876][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-15 19:36:37.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:37.880][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-15 19:36:37.881][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-15 19:36:37.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.884][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[2023-10-15 19:36:37.885][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-15 19:36:37.886][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-15 19:36:37.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:37.889][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-15 19:36:37.891][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-15 19:36:37.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:37.900][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-15 19:36:37.904][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-15 19:36:37.908][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-15 19:36:37.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:37.912][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-15 19:36:37.913][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-15 19:36:37.914][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-15 19:36:37.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:37.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:37.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:37.918][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-15 19:36:37.919][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:37.920][self$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[2023-10-15 19:36:37.921][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:37.922][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:37.923][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:37.924][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:37.925][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:37.926][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:37.927][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 19:36:37.928][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:37.929][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:37.930][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-15 19:36:37.931][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:37.932][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:37.933][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:37.934][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 19:36:37.934][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 19:36:37.934][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 19:36:37.934][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 19:36:37.934][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 19:36:37.935][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:37.936][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:37.937][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:37.938][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:37.939][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:37.940][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:37.941][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:37.942][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:37.943][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:37.944][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:37.945][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:37.946][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:37.947][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-15 19:36:37.949][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:37.950][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 19:36:37.951][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:37.952][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:37.953][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:37.954][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:37.955][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:37.956][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:37.956][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 19:36:37.957][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:37.958][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:37.959][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-15 19:36:37.960][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:37.961][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:37.962][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:37.963][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 19:36:37.963][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 19:36:37.963][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 19:36:37.963][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 19:36:37.963][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 19:36:37.964][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:37.965][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:37.966][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:37.967][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:37.968][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:37.969][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:37.970][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:37.971][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:37.972][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:37.972][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:37.973][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:37.974][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:37.975][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-15 19:36:37.977][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:37.978][self$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[2023-10-15 19:36:37.979][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:37.980][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:37.981][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:37.982][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:37.983][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:37.984][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:37.985][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 19:36:37.986][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:37.987][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:37.988][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-15 19:36:37.989][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:37.990][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:37.991][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:37.992][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:37.993][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:37.994][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:37.995][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:37.995][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:37.996][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:37.997][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:37.998][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:37.999][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:38.000][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:38.001][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:38.002][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:38.003][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:38.004][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-15 19:36:38.006][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:38.007][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 19:36:38.008][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:38.009][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:38.010][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:38.011][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:38.012][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:38.013][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 19:36:38.014][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 19:36:38.015][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:38.016][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:38.017][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-15 19:36:38.018][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:38.019][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:38.020][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:38.021][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:38.022][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 19:36:38.023][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:38.023][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:38.024][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:38.025][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:38.026][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:38.027][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:38.028][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:38.029][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:38.030][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:38.031][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:38.032][self$setPropertyValue]
biodb.DEBUG[2023-10-15 19:36:38.033][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 19:36:38.034][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.048][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[2023-10-15 19:36:38.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.061][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.DEBUG[2023-10-15 19:36:38.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.072][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[2023-10-15 19:36:38.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.107][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[2023-10-15 19:36:38.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.116][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.DEBUG[2023-10-15 19:36:38.117][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-15 19:36:38.118][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-15 19:36:38.120][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-15 19:36:38.121][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-15 19:36:38.122][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 19:36:38.124][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-15 19:36:38.125][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-15 19:36:38.126][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-15 19:36:38.128][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-15 19:36:38.129][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-15 19:36:38.130][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 19:36:38.132][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-15 19:36:38.133][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-15 19:36:38.135][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-15 19:36:38.136][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-15 19:36:38.137][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 19:36:38.139][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-15 19:36:38.140][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-15 19:36:38.141][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 19:36:38.143][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-15 19:36:38.144][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-15 19:36:38.145][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-15 19:36:38.147][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-15 19:36:38.148][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-15 19:36:38.149][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-15 19:36:38.151][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-15 19:36:38.152][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-15 19:36:38.153][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-15 19:36:38.155][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-15 19:36:38.156][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-15 19:36:38.157][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-15 19:36:38.159][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-15 19:36:38.160][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-15 19:36:38.161][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-15 19:36:38.163][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-15 19:36:38.164][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-15 19:36:38.165][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-15 19:36:38.167][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-15 19:36:38.168][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-15 19:36:38.169][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-15 19:36:38.171][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-15 19:36:38.172][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-15 19:36:38.174][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-15 19:36:38.175][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-15 19:36:38.176][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-15 19:36:38.178][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-15 19:36:38.179][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-15 19:36:38.181][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-15 19:36:38.182][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-15 19:36:38.183][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-15 19:36:38.185][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-15 19:36:38.186][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-15 19:36:38.188][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-15 19:36:38.189][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-15 19:36:38.190][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-15 19:36:38.192][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-15 19:36:38.193][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-15 19:36:38.194][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-15 19:36:38.196][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-15 19:36:38.197][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-15 19:36:38.198][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-15 19:36:38.200][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-15 19:36:38.201][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-15 19:36:38.202][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-15 19:36:38.204][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-15 19:36:38.205][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-15 19:36:38.206][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 19:36:38.208][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 19:36:38.209][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-15 19:36:38.211][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-15 19:36:38.212][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-15 19:36:38.213][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-15 19:36:38.215][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-15 19:36:38.216][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-15 19:36:38.217][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-15 19:36:38.219][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-15 19:36:38.220][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-15 19:36:38.221][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-15 19:36:38.223][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-15 19:36:38.224][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-15 19:36:38.434][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-15 19:36:38.436][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-15 19:36:38.438][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-15 19:36:38.439][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-15 19:36:38.440][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-15 19:36:38.441][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 19:36:38.442][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.444][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.468][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[2023-10-15 19:36:38.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.474][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[2023-10-15 19:36:38.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.480][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[2023-10-15 19:36:38.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.486][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[2023-10-15 19:36:38.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.499][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[2023-10-15 19:36:38.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.506][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[2023-10-15 19:36:38.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.526][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.DEBUG[2023-10-15 19:36:38.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.539][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[2023-10-15 19:36:38.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.546][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[2023-10-15 19:36:38.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.553][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[2023-10-15 19:36:38.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 19:36:38.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.562][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-10-15 19:36:38.563][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-10-15 19:36:38.566][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:38.567][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-15 19:36:38.568][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:38.569][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 19:36:38.570][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:38.571][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 19:36:38.572][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:38.573][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-10-15 19:36:38.574][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-10-15 19:36:38.576][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 19:36:38.577][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:38.578][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-10-15 19:36:38.579][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 19:36:38.580][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-10-15 19:36:38.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-10-15 19:36:38.580][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-10-15 19:36:38.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-10-15 19:36:38.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-10-15 19:36:38.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-10-15 19:36:38.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-10-15 19:36:38.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-10-15 19:36:38.580][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-10-15 19:36:38.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-10-15 19:36:38.580][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-10-15 19:36:38.582][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-15 19:36:38.583][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 19:36:38.583][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 19:36:38.583][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 19:36:38.584][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-10-15 19:36:38.585][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:38.586][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:38.587][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 19:36:38.588][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 19:36:38.589][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 19:36:38.590][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 19:36:38.591][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-10-15 19:36:38.591][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-10-15 19:36:38.592][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 19:36:38.593][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 19:36:38.594][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-15 19:36:38.595][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-10-15 19:36:38.595][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-10-15 19:36:38.597][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 19:36:38.599][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 19:36:38.600][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-10-15 19:36:38.602][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 19:36:38.603][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 19:36:38.605][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 19:36:38.609][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-10-15 19:36:38.610][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-10-15 19:36:38.611][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-10-15 19:36:38.613][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-10-15 19:36:38.614][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 19:36:38.615][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 19:36:38.617][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-10-15 19:36:38.618][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-10-15 19:36:38.619][biodb::testThat]
biodb.INFO [2023-10-15 19:36:38.620][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2023-10-15 19:36:38.621][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 19:36:38.622][biodb::testThat]
biodb.DEBUG[2023-10-15 19:36:38.639][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-10-15 19:36:38.643][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:38.644][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-10-15 19:36:38.645][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:38.647][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-10-15 19:36:38.650][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 19:36:38.653][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 19:36:38.655][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2023-10-15 19:36:38.656][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 19:36:38.657][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2023-10-15 19:36:38.662][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2023-10-15 19:36:38.663][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 19:36:38.665][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2023-10-15 19:36:38.666][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-10-15 19:36:38.667][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-10-15 19:36:38.668][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 19:36:38.669][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-10-15 19:36:38.670][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2023-10-15 19:36:38.671][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2023-10-15 19:36:38.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:38.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:38.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:38.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:38.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:38.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:38.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 19:36:38.686][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2023-10-15 19:36:38.688][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 19:36:38.689][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 19:36:38.691][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2023-10-15 19:36:39.179][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2023-10-15 19:36:40.110][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-10-15 19:36:40.115][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2023-10-15 19:36:40.123][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2023-10-15 19:36:40.129][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2023-10-15 19:36:40.132][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2023-10-15 19:36:40.135][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 19:36:40.137][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 19:36:40.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 19:36:40.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:40.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:40.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:40.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:40.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:40.161][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.TRACE[2023-10-15 19:36:40.165][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:40.167][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:40.168][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.170][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:40.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:40.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.191][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:40.192][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:40.193][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.194][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.195][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 19:36:40.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 19:36:40.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.199][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:40.200][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:40.201][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.202][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.203][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 19:36:40.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 19:36:40.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.207][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 19:36:40.209][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 19:36:40.209][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.210][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.212][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 19:36:40.213][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 19:36:40.214][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.215][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.216][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:40.217][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:40.218][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.219][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.220][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:40.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 19:36:40.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.224][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:40.225][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:40.226][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.227][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.228][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 19:36:40.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 19:36:40.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.232][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:40.233][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:40.234][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.235][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:40.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 19:36:40.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.240][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:40.241][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:40.242][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.243][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 19:36:40.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 19:36:40.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.248][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:40.249][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:40.250][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.251][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.252][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 19:36:40.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 19:36:40.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.256][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:40.257][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:40.258][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.259][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.260][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 19:36:40.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 19:36:40.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:40.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:40.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:40.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:40.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:40.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:40.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 19:36:40.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 19:36:40.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:40.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:40.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:40.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:40.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:40.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:40.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:40.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:40.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:40.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:40.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 19:36:40.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 19:36:40.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 19:36:40.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 19:36:40.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 19:36:40.308][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2023-10-15 19:36:40.313][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-15 19:36:40.314][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-10-15 19:36:40.315][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-10-15 19:36:40.316][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-15 19:36:40.316][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 19:36:40.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 19:36:40.318][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 19:36:40.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 19:36:40.320][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 19:36:40.320][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 345 ]
> 
> proc.time()
   user  system elapsed 
 19.699   0.979  40.018

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.9710.1402.757
ChebiEntry0.1370.0040.141