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This page was generated on 2024-04-17 11:35:48 -0400 (Wed, 17 Apr 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4676
palomino4Windows Server 2022 Datacenterx644.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" 4414
merida1macOS 12.7.1 Montereyx86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4437
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 196/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.8.0  (landing page)
Pierrick Roger
Snapshot Date: 2024-04-15 14:05:01 -0400 (Mon, 15 Apr 2024)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_18
git_last_commit: 664af9c
git_last_commit_date: 2023-10-24 11:36:37 -0400 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here

CHECK results for biodbChebi on nebbiolo2


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: 1.8.0
Command: /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.18-bioc/R/site-library --timings biodbChebi_1.8.0.tar.gz
StartedAt: 2024-04-15 20:33:14 -0400 (Mon, 15 Apr 2024)
EndedAt: 2024-04-15 20:35:12 -0400 (Mon, 15 Apr 2024)
EllapsedTime: 117.6 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.18-bioc/R/site-library --timings biodbChebi_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/biodbChebi.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.8.0’
* 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
 OK
* 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-3.18-bioc/R/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.18-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 4.3.3 (2024-02-29) -- "Angel Food Cake"
Copyright (C) 2024 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 [2024-04-15 20:33:57.758][biodb::testContext]
biodb.INFO [2024-04-15 20:33:57.760][biodb::testContext] ********************************************************************************
biodb.INFO [2024-04-15 20:33:57.761][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-04-15 20:33:57.762][biodb::testContext] ********************************************************************************
biodb.INFO [2024-04-15 20:33:57.763][biodb::testContext]
biodb.INFO [2024-04-15 20:33:57.771][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.10.0.
biodb.DEBUG[2024-04-15 20:33:57.773][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.18-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-04-15 20:33:57.781][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-04-15 20:33:57.782][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-04-15 20:33:57.783][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-04-15 20:33:57.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.787][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-04-15 20:33:57.807][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-04-15 20:33:57.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.811][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-04-15 20:33:57.812][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-04-15 20:33:57.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.816][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-04-15 20:33:57.817][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-04-15 20:33:57.818][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-04-15 20:33:57.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.822][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-04-15 20:33:57.823][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-04-15 20:33:57.824][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-04-15 20:33:57.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.828][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-04-15 20:33:57.829][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-04-15 20:33:57.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.831][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[2024-04-15 20:33:57.832][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-04-15 20:33:57.833][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-04-15 20:33:57.834][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-04-15 20:33:57.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.838][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-04-15 20:33:57.839][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-04-15 20:33:57.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.843][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-04-15 20:33:57.844][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-04-15 20:33:57.845][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-04-15 20:33:57.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.849][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-04-15 20:33:57.850][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-04-15 20:33:57.851][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-04-15 20:33:57.852][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-04-15 20:33:57.853][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-04-15 20:33:57.854][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-04-15 20:33:57.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.857][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[2024-04-15 20:33:57.858][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-04-15 20:33:57.859][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-04-15 20:33:57.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.863][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-04-15 20:33:57.864][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-04-15 20:33:57.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.868][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-04-15 20:33:57.869][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-04-15 20:33:57.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.873][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-04-15 20:33:57.875][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-04-15 20:33:57.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.879][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-04-15 20:33:57.880][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-04-15 20:33:57.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.883][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-04-15 20:33:57.885][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-04-15 20:33:57.888][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-04-15 20:33:57.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.893][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-04-15 20:33:57.894][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-04-15 20:33:57.895][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-04-15 20:33:57.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:57.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:57.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:57.902][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-04-15 20:33:57.941][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:57.964][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-04-15 20:33:57.965][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:57.966][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:33:57.967][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:57.968][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:33:57.969][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:57.970][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:33:57.971][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-04-15 20:33:57.972][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:33:57.973][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:57.973][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-04-15 20:33:57.974][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:33:57.975][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:57.976][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:57.977][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-04-15 20:33:57.977][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-04-15 20:33:57.977][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-04-15 20:33:57.977][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-04-15 20:33:57.977][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-04-15 20:33:57.978][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:33:57.979][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:33:57.980][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:33:57.981][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:33:57.981][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:33:57.982][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:33:57.983][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:33:57.984][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:57.985][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:33:57.986][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:33:57.986][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:57.987][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:57.988][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-04-15 20:33:57.990][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:57.991][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-04-15 20:33:57.992][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:57.993][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:33:57.994][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:57.995][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:33:57.996][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:57.996][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:33:57.997][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-04-15 20:33:57.998][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:33:57.999][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.000][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-04-15 20:33:58.001][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:33:58.002][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:58.003][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.004][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-04-15 20:33:58.004][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-04-15 20:33:58.004][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-04-15 20:33:58.004][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-04-15 20:33:58.004][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-04-15 20:33:58.005][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:33:58.006][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:33:58.006][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:33:58.007][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:33:58.008][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:33:58.009][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:33:58.010][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:33:58.011][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:58.012][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:33:58.012][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:33:58.013][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:58.014][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:58.015][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-04-15 20:33:58.017][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.018][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-04-15 20:33:58.019][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.020][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:33:58.021][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.022][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:33:58.027][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:58.028][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:33:58.029][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-04-15 20:33:58.030][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:33:58.031][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:58.032][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-04-15 20:33:58.033][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:33:58.034][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:58.035][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.036][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:58.037][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:33:58.038][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:33:58.039][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:33:58.040][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:33:58.041][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:33:58.042][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:33:58.043][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:33:58.044][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:58.045][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:33:58.046][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:33:58.047][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:58.048][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:58.049][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-04-15 20:33:58.051][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.052][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-04-15 20:33:58.053][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.054][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:33:58.055][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.056][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:33:58.057][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:58.058][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:33:58.059][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-04-15 20:33:58.060][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:33:58.061][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:58.063][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-04-15 20:33:58.063][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:33:58.064][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:58.065][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.067][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:58.068][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:33:58.069][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:33:58.069][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:33:58.070][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:33:58.071][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:33:58.072][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:33:58.073][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:33:58.075][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:58.076][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:33:58.077][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:33:58.078][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:58.079][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:33:58.084][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-04-15 20:33:58.085][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.086][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[2024-04-15 20:33:58.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.120][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[2024-04-15 20:33:58.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.130][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[2024-04-15 20:33:58.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.152][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[2024-04-15 20:33:58.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.158][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[2024-04-15 20:33:58.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.177][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-04-15 20:33:58.185][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-04-15 20:33:58.188][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-04-15 20:33:58.189][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-04-15 20:33:58.191][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-04-15 20:33:58.193][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-04-15 20:33:58.195][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-04-15 20:33:58.197][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-04-15 20:33:58.199][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-04-15 20:33:58.200][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-04-15 20:33:58.202][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-04-15 20:33:58.204][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-04-15 20:33:58.206][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-04-15 20:33:58.208][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-04-15 20:33:58.209][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-04-15 20:33:58.211][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-04-15 20:33:58.213][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-04-15 20:33:58.214][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-04-15 20:33:58.216][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-04-15 20:33:58.218][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-04-15 20:33:58.220][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-04-15 20:33:58.222][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-04-15 20:33:58.223][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-04-15 20:33:58.225][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-04-15 20:33:58.227][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-04-15 20:33:58.229][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-04-15 20:33:58.230][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-04-15 20:33:58.232][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-04-15 20:33:58.234][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-04-15 20:33:58.236][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-04-15 20:33:58.237][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-04-15 20:33:58.239][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-04-15 20:33:58.241][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-04-15 20:33:58.286][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-04-15 20:33:58.288][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-04-15 20:33:58.290][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-04-15 20:33:58.292][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-04-15 20:33:58.294][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-04-15 20:33:58.296][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-04-15 20:33:58.297][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-04-15 20:33:58.299][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-04-15 20:33:58.301][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-04-15 20:33:58.303][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-04-15 20:33:58.305][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-04-15 20:33:58.307][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-04-15 20:33:58.309][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-04-15 20:33:58.310][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-04-15 20:33:58.312][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-04-15 20:33:58.314][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-04-15 20:33:58.316][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-04-15 20:33:58.318][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-04-15 20:33:58.320][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-04-15 20:33:58.322][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-04-15 20:33:58.323][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-04-15 20:33:58.325][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-04-15 20:33:58.327][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-04-15 20:33:58.329][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-04-15 20:33:58.331][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-04-15 20:33:58.333][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-04-15 20:33:58.335][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-04-15 20:33:58.337][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-04-15 20:33:58.339][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-04-15 20:33:58.341][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-04-15 20:33:58.343][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-04-15 20:33:58.345][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-04-15 20:33:58.347][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-04-15 20:33:58.348][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-04-15 20:33:58.350][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-04-15 20:33:58.352][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-04-15 20:33:58.354][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-04-15 20:33:58.355][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-04-15 20:33:58.357][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-04-15 20:33:58.359][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-04-15 20:33:58.361][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-04-15 20:33:58.363][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-04-15 20:33:58.364][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-04-15 20:33:58.366][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-04-15 20:33:58.368][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-04-15 20:33:58.369][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-04-15 20:33:58.371][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-04-15 20:33:58.373][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-04-15 20:33:58.374][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-04-15 20:33:58.375][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-04-15 20:33:58.383][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-04-15 20:33:58.385][initialize] This is biodb version 1.10.0.
biodb.DEBUG[2024-04-15 20:33:58.389][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-04-15 20:33:58.390][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.392][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.409][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[2024-04-15 20:33:58.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.416][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.DEBUG[2024-04-15 20:33:58.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.422][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[2024-04-15 20:33:58.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:33:58.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:33:58.504][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.18-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-04-15 20:33:58.514][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-04-15 20:33:58.516][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:58.517][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-04-15 20:33:58.518][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.519][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:33:58.520][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.521][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:33:58.522][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.523][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-04-15 20:33:58.524][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-04-15 20:33:58.525][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:33:58.526][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.527][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-04-15 20:33:58.528][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:33:58.529][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-04-15 20:33:58.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-04-15 20:33:58.529][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-04-15 20:33:58.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-04-15 20:33:58.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-04-15 20:33:58.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-04-15 20:33:58.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-04-15 20:33:58.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-04-15 20:33:58.529][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-04-15 20:33:58.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-04-15 20:33:58.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-04-15 20:33:58.530][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-04-15 20:33:58.531][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-04-15 20:33:58.531][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-04-15 20:33:58.531][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-04-15 20:33:58.532][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-04-15 20:33:58.533][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:33:58.533][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:33:58.534][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:33:58.535][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:33:58.536][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:33:58.537][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:33:58.538][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-04-15 20:33:58.538][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-04-15 20:33:58.539][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:33:58.540][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:33:58.541][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-04-15 20:33:58.542][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-04-15 20:33:58.542][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-04-15 20:33:58.548][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-04-15 20:33:58.550][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-04-15 20:33:58.557][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-04-15 20:33:58.559][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-04-15 20:33:58.560][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-04-15 20:33:58.562][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-04-15 20:33:58.590][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-04-15 20:33:58.591][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-04-15 20:33:58.596][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-04-15 20:33:58.601][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-04-15 20:33:58.606][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-04-15 20:33:58.607][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-04-15 20:33:58.608][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-04-15 20:33:58.609][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-04-15 20:33:58.620][biodb::testThat]
biodb.INFO [2024-04-15 20:33:58.621][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-04-15 20:33:58.622][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:33:58.623][biodb::testThat]
biodb.TRACE[2024-04-15 20:33:58.628][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.18-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-04-15 20:33:58.630][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:33:58.634][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:33:58.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:33:58.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:58.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:58.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:58.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:58.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:58.662][FUN] Functions in observer BiodbConfig: [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[2024-04-15 20:33:58.673][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:58.675][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:58.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.677][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:58.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:58.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.696][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:33:58.697][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:33:58.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.699][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.727][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:33:58.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:33:58.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.732][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:33:58.733][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:33:58.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.735][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.736][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:33:58.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:33:58.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.741][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:33:58.742][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:33:58.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.744][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:33:58.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:33:58.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.749][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:33:58.750][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:33:58.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.752][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.754][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:33:58.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:33:58.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.758][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:58.759][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:58.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.761][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.762][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:58.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:58.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.767][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:33:58.768][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:58.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.770][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.771][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:33:58.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:58.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.775][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:58.776][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:58.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.778][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:58.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:58.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.783][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:58.784][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:58.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.786][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.788][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:58.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:58.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.792][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:33:58.793][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:33:58.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.795][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.796][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:33:58.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:33:58.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.800][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:33:58.801][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:33:58.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.803][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.804][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:33:58.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:33:58.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:58.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:58.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:58.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:58.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:58.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:58.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:58.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:58.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:58.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:58.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:58.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:58.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:58.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:58.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:58.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:58.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:58.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:58.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:58.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:58.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:33:58.893][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-04-15 20:33:58.896][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:33:58.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:33:58.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.900][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:33:58.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:33:58.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.927][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:33:58.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:33:58.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:33:58.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:33:58.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:58.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:58.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:58.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:58.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.944][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-04-15 20:33:58.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-04-15 20:33:58.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.948][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-04-15 20:33:58.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-04-15 20:33:58.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.952][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-04-15 20:33:58.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-04-15 20:33:58.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.956][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-04-15 20:33:58.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-04-15 20:33:58.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:58.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:58.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:58.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:58.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:58.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:58.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.059][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.060][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.068][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.092][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.093][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.095][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.107][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.111][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.119][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.120][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.122][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.135][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:33:59.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:33:59.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.140][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:33:59.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:33:59.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.144][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:33:59.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:33:59.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.148][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:33:59.149][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:33:59.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.151][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.152][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:33:59.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:33:59.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.177][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.178][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.180][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.206][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.208][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.209][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.222][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:33:59.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:33:59.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.226][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:33:59.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:33:59.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.230][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:33:59.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:33:59.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.234][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:33:59.235][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:33:59.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.237][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.238][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:33:59.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:33:59.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.249][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.253][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.257][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.261][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.262][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.264][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.265][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.276][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.280][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.283][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.320][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.321][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.323][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.324][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.336][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:33:59.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:33:59.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.340][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:33:59.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:33:59.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.344][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:33:59.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:33:59.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.348][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:33:59.349][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:33:59.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.351][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.352][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:33:59.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:33:59.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.371][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.375][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.376][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.378][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.379][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.391][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:33:59.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:33:59.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.396][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:33:59.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:33:59.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:33:59.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:33:59.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.404][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:33:59.405][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:33:59.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.407][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.408][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:33:59.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:33:59.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.420][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.421][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.423][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.428][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:33:59.429][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:33:59.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.431][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.436][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:33:59.437][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:33:59.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.439][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.443][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:33:59.444][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:33:59.445][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.446][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.451][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.452][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.454][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.458][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.460][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.461][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.466][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.467][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.469][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.473][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.474][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.476][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.481][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.482][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.484][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.488][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.489][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.491][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.495][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:33:59.496][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:33:59.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.498][ef$get] fields variable is a list.
biodb.INFO [2024-04-15 20:33:59.505][biodb::testThat]
biodb.INFO [2024-04-15 20:33:59.506][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-04-15 20:33:59.507][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:33:59.508][biodb::testThat]
biodb.DEBUG[2024-04-15 20:33:59.521][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-04-15 20:33:59.530][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:33:59.535][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-04-15 20:33:59.536][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:33:59.538][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-04-15 20:33:59.539][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:33:59.568][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:33:59.570][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:33:59.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:33:59.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:33:59.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:33:59.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:33:59.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:33:59.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:33:59.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:33:59.583][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.584][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.586][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.608][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:33:59.610][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:33:59.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.612][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.613][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:33:59.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:33:59.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.617][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:33:59.619][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:33:59.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.620][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.622][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:33:59.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:33:59.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.626][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:33:59.627][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:33:59.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.629][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:33:59.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:33:59.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.635][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.636][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.638][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.639][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:33:59.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.643][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.644][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.646][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.647][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:33:59.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.652][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:33:59.653][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.654][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.656][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:33:59.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.660][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.661][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.663][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.668][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.669][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.671][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.677][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:33:59.678][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.680][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.681][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:33:59.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:33:59.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.685][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:33:59.686][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:33:59.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.688][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.690][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:33:59.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:33:59.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:33:59.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:33:59.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:33:59.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:33:59.732][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-04-15 20:33:59.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-04-15 20:33:59.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-04-15 20:33:59.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-04-15 20:33:59.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-04-15 20:33:59.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-04-15 20:33:59.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-04-15 20:33:59.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-04-15 20:33:59.751][biodb::testThat]
biodb.INFO [2024-04-15 20:33:59.758][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-04-15 20:33:59.759][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:33:59.759][biodb::testThat]
biodb.TRACE[2024-04-15 20:33:59.763][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.764][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.765][ef$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:33:59.767][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-04-15 20:33:59.791][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:33:59.807][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-04-15 20:33:59.812][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-04-15 20:33:59.833][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:33:59.849][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-04-15 20:33:59.851][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:33:59.852][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-04-15 20:33:59.876][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[2024-04-15 20:33:59.880][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:33:59.882][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-04-15 20:33:59.883][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:33:59.884][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-04-15 20:33:59.886][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-04-15 20:33:59.898][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.899][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:33:59.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.901][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.902][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.903][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:33:59.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.905][ef$get] fields variable is a list.
biodb.INFO [2024-04-15 20:33:59.908][biodb::testThat]
biodb.INFO [2024-04-15 20:33:59.909][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-04-15 20:33:59.910][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:33:59.911][biodb::testThat]
biodb.TRACE[2024-04-15 20:33:59.934][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.939][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:33:59.943][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:33:59.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:33:59.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:33:59.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:00.005][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[2024-04-15 20:34:00.009][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:00.011][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-04-15 20:34:00.012][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:00.013][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-04-15 20:34:00.029][biodb::testThat]
biodb.INFO [2024-04-15 20:34:00.030][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-04-15 20:34:00.031][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:00.032][biodb::testThat]
biodb.TRACE[2024-04-15 20:34:00.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:00.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:00.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.058][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:00.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:00.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.062][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:00.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:00.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:00.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:00.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:00.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:00.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:00.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:00.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.078][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-04-15 20:34:00.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-04-15 20:34:00.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.082][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-04-15 20:34:00.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-04-15 20:34:00.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.086][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-04-15 20:34:00.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-04-15 20:34:00.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.090][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-04-15 20:34:00.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-04-15 20:34:00.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:00.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:00.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:00.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:00.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:00.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:00.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.123][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:00.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:00.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:00.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:00.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:00.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:00.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.134][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-04-15 20:34:00.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-04-15 20:34:00.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.138][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-04-15 20:34:00.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-04-15 20:34:00.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.142][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-04-15 20:34:00.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-04-15 20:34:00.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:00.146][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-04-15 20:34:00.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-04-15 20:34:00.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:00.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-04-15 20:34:00.160][biodb::testThat]
biodb.INFO [2024-04-15 20:34:00.162][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-04-15 20:34:00.163][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:00.163][biodb::testThat]
biodb.INFO [2024-04-15 20:34:00.171][biodb::testThat]
biodb.INFO [2024-04-15 20:34:00.172][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-04-15 20:34:00.173][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:00.174][biodb::testThat]
biodb.INFO [2024-04-15 20:34:00.182][biodb::testThat]
biodb.INFO [2024-04-15 20:34:00.183][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-04-15 20:34:00.184][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:00.185][biodb::testThat]
biodb.DEBUG[2024-04-15 20:34:00.188][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-04-15 20:34:00.911][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-04-15 20:34:02.200][biodb::testThat]
biodb.INFO [2024-04-15 20:34:02.202][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-04-15 20:34:02.203][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:02.204][biodb::testThat]
biodb.DEBUG[2024-04-15 20:34:02.681][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[2024-04-15 20:34:03.182][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:03.186][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:03.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.191][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.194][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:03.197][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:03.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.202][ef$get] fields variable is a list.
biodb.INFO [2024-04-15 20:34:03.207][biodb::testThat]
biodb.INFO [2024-04-15 20:34:03.210][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2024-04-15 20:34:03.213][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:03.215][biodb::testThat]
biodb.TRACE[2024-04-15 20:34:03.236][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:03.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:03.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.242][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:03.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:03.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:03.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:03.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:03.349][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[2024-04-15 20:34:03.353][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:03.354][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-04-15 20:34:03.355][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:03.357][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-04-15 20:34:03.421][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[2024-04-15 20:34:03.425][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:03.426][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-04-15 20:34:03.428][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:03.429][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-04-15 20:34:03.444][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-04-15 20:34:03.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-04-15 20:34:03.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.460][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:03.487][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[2024-04-15 20:34:03.491][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:03.492][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-04-15 20:34:03.493][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:03.495][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-04-15 20:34:03.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:03.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:03.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:03.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:03.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:03.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:03.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:03.508][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-04-15 20:34:03.551][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:03.553][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-04-15 20:34:03.554][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:03.556][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2024-04-15 20:34:03.557][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:03.558][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:03.560][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:03.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:03.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:03.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:03.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:03.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:03.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:03.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:03.572][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:03.573][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:03.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.575][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:03.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:03.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.580][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:03.581][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:03.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.583][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.584][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:03.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:03.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.588][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:03.589][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:03.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.591][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.593][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:03.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:03.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.597][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:03.598][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:03.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.600][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.602][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:03.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:03.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.606][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:03.607][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:03.608][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.609][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.610][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:03.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:03.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.614][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:03.615][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:03.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.617][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.619][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:03.620][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.622][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.623][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:03.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.627][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:03.628][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:03.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.630][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:03.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:03.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.701][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:03.703][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:03.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.705][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.709][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:03.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:03.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.714][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:03.715][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:03.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.718][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.720][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:03.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:03.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.725][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:03.727][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:03.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.730][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.731][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:03.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:03.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:03.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:03.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:03.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:03.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:03.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:03.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:03.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:03.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:03.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:03.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:03.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:03.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:03.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:03.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:03.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:03.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:03.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:03.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:03.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:03.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:03.779][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-04-15 20:34:03.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.799][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:03.806][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[2024-04-15 20:34:03.811][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:03.813][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-04-15 20:34:03.814][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:03.816][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-04-15 20:34:03.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:03.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:03.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:03.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:03.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:03.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:03.851][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.TRACE[2024-04-15 20:34:03.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:03.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:03.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:03.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:03.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:03.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:03.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:03.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:03.877][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-04-15 20:34:03.878][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:03.880][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-04-15 20:34:03.881][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:03.883][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2024-04-15 20:34:03.884][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:03.886][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:03.887][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:03.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:03.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:03.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:03.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:03.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:03.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:03.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:03.902][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:03.903][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:03.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.911][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:03.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:03.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.917][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:03.918][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:03.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.920][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.921][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:03.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:03.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.925][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:03.926][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:03.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.928][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.930][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:03.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:03.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.934][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:03.935][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:03.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.937][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:03.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:03.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.943][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:03.944][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:03.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.946][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:03.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:03.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.951][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:03.953][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:03.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.954][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.956][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:03.957][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.959][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.960][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:03.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:03.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.964][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:03.965][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:03.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.967][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:03.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:03.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.973][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:03.974][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:03.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.976][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.977][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:03.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:03.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.981][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:03.982][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:03.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.984][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.986][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:03.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:03.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.990][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:03.991][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:03.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.993][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.994][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:03.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:03.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:03.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:03.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:03.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:04.037][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-04-15 20:34:04.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:04.068][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[2024-04-15 20:34:04.071][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:04.073][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-04-15 20:34:04.074][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:04.075][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-04-15 20:34:04.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:04.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:04.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:04.085][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:04.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:04.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:04.094][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[2024-04-15 20:34:04.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:04.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:04.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:04.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:04.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:04.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:04.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:04.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:04.119][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-04-15 20:34:04.120][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:04.122][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-04-15 20:34:04.123][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:04.125][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2024-04-15 20:34:04.126][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:04.127][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:04.128][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:04.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:04.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:04.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:04.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:04.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:04.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:04.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:04.142][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.143][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.145][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.151][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:04.152][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:04.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.154][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.155][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:04.156][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:04.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.158][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.160][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:04.161][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:04.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.163][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.164][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.165][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.167][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.168][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.169][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.171][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.173][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:04.174][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.176][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.177][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.178][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.180][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.181][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:04.182][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:04.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.184][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.186][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:04.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:04.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.190][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:04.191][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:04.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.192][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.194][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:04.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:04.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.198][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:04.199][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:04.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.200][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:04.240][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-04-15 20:34:04.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:04.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:04.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:04.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:04.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:04.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:04.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:04.276][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[2024-04-15 20:34:04.277][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-04-15 20:34:04.278][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:04.280][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-04-15 20:34:04.281][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:04.283][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2024-04-15 20:34:04.284][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:04.285][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:04.286][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:04.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:04.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:04.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:04.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:04.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:04.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:04.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:04.300][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.301][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.303][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.309][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:04.310][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:04.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.312][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.313][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:04.315][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:04.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.316][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.318][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:04.319][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:04.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.321][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.322][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.323][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.325][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.327][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.328][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.330][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.331][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:04.332][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.334][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.335][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.336][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.337][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.338][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.339][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:04.340][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:04.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.342][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.344][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:04.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:04.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.348][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:04.349][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:04.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.351][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.352][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:04.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:04.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.356][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:04.358][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:04.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.359][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:04.399][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-04-15 20:34:04.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:04.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:04.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:04.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:04.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:04.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:04.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:04.430][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[2024-04-15 20:34:04.431][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-04-15 20:34:04.432][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:04.433][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-04-15 20:34:04.435][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:04.436][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2024-04-15 20:34:04.437][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:04.438][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:04.439][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:04.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:04.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:04.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:04.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:04.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:04.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:04.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:04.460][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.463][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.469][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:04.470][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:04.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.472][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.473][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:04.474][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:04.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.476][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.478][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:04.479][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:04.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.481][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.482][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.483][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.485][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.486][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.488][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.489][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.491][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:04.492][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.494][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.495][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.496][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.498][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.499][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:04.501][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:04.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.502][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.504][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:04.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:04.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.509][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:04.510][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:04.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.512][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.513][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:04.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:04.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.517][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:04.518][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:04.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.520][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:04.561][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-04-15 20:34:04.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:04.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:04.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:04.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:04.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:04.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:04.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:04.591][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[2024-04-15 20:34:04.592][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-04-15 20:34:04.593][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:04.594][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-04-15 20:34:04.596][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:04.597][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2024-04-15 20:34:04.598][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:04.599][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:04.601][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:04.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:04.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:04.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:04.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:04.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:04.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:04.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:04.614][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.615][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.617][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.622][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:04.623][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:04.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.625][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.626][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:04.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:04.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.637][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:04.638][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:04.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.640][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.641][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:04.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:04.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.646][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:04.647][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:04.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.649][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:04.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:04.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.654][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.655][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.657][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.659][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.663][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.664][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.666][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.667][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.672][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:04.673][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.675][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.676][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:04.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.680][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.681][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.683][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.689][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:04.690][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:04.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.692][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.694][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:04.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:04.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.698][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:04.699][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:04.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.701][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.703][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:04.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:04.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.707][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:04.708][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:04.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.710][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.711][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:04.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:04.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:04.754][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-04-15 20:34:04.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:04.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:04.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:04.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:04.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:04.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:04.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:04.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:04.777][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-04-15 20:34:04.778][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:04.780][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-04-15 20:34:04.781][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:04.782][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2024-04-15 20:34:04.784][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:04.785][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:04.786][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:04.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:04.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:04.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:04.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:04.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:04.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:04.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:04.800][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.801][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.803][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.808][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:04.809][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:04.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.818][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.820][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:04.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:04.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.824][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:04.825][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:04.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.827][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.828][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:04.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:04.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.833][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:04.834][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:04.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.836][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:04.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:04.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.841][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.842][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.844][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.846][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:04.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.850][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.851][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.853][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.854][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:04.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.858][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:04.860][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.861][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.863][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:04.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.867][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.868][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.870][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:04.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.876][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:04.877][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:04.878][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.878][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.880][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:04.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:04.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.884][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:04.885][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:04.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.887][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.888][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:04.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:04.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.892][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:04.894][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:04.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.895][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.897][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:04.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:04.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:04.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:04.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:04.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:04.940][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-04-15 20:34:04.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:04.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:04.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:04.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:04.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:04.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:04.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:04.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:04.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:04.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:04.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:04.988][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-04-15 20:34:04.989][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:04.993][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-04-15 20:34:04.995][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:04.997][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2024-04-15 20:34:04.999][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:05.001][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:05.002][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:05.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:05.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:05.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:05.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:05.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:05.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:05.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:05.022][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.023][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.026][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.050][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:05.051][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:05.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.054][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.055][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:05.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:05.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.059][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:05.061][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:05.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.063][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.064][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:05.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:05.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.068][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:05.070][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:05.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.072][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.073][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:05.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:05.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.078][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.079][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.081][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.086][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:05.088][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:05.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.090][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.091][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:05.092][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.094][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.095][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:05.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.100][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.101][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.103][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.109][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:05.110][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:05.111][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.112][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.113][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:05.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:05.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.117][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:05.119][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:05.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.120][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.122][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:05.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:05.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.126][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:05.127][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:05.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.129][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.130][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:05.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:05.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:05.184][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-04-15 20:34:05.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:05.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:05.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:05.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:05.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:05.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:05.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:05.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:05.209][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-04-15 20:34:05.210][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:05.212][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-04-15 20:34:05.213][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:05.215][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2024-04-15 20:34:05.216][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:05.217][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:05.219][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:05.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:05.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:05.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:05.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:05.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:05.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:05.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:05.232][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.233][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.235][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.246][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:05.247][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:05.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.249][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.250][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:05.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:05.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.254][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:05.255][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:05.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.257][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.258][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:05.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:05.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.262][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:05.263][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:05.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.265][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:05.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:05.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.270][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.271][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.273][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.274][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.278][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:05.279][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:05.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.281][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.283][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:05.284][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.285][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.287][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:05.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.291][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.292][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.294][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.299][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:05.300][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:05.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.302][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.303][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:05.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:05.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.307][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:05.308][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:05.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.310][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.311][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:05.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:05.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.315][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:05.316][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:05.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.318][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.319][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:05.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:05.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:05.363][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-04-15 20:34:05.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:05.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:05.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:05.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:05.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:05.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:05.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:05.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:05.388][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-04-15 20:34:05.389][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:05.391][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-04-15 20:34:05.392][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:05.394][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2024-04-15 20:34:05.395][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:05.396][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:05.397][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:05.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:05.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:05.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:05.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:05.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:05.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:05.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:05.412][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.415][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.425][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:05.426][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:05.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.428][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.430][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:05.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:05.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.434][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:05.435][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:05.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.437][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.438][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:05.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:05.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.442][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:05.443][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:05.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.445][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.446][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:05.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:05.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.450][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.451][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.453][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.454][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.458][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:05.460][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:05.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.461][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.463][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:05.464][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.466][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.467][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:05.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.471][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.472][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.474][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.479][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:05.480][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:05.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.482][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:05.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:05.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.488][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:05.489][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:05.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.491][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.492][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:05.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:05.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.496][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:05.497][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:05.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.499][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.500][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:05.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:05.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:05.545][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-04-15 20:34:05.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:05.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:05.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:05.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:05.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:05.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:05.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:05.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:05.571][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-04-15 20:34:05.572][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:05.574][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-04-15 20:34:05.575][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:05.577][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2024-04-15 20:34:05.578][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:05.579][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:05.580][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:05.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:05.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:05.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:05.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:05.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:05.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:05.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:05.594][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.596][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.598][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.608][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:05.610][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:05.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.611][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.613][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:05.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:05.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.617][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:05.618][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:05.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.620][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.621][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:05.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:05.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.625][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:05.626][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:05.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.628][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:05.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:05.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.634][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.635][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.637][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.638][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.642][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:05.643][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:05.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.645][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.646][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:05.647][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.649][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.651][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:05.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.655][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.656][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.657][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.663][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:05.664][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:05.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.666][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:05.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:05.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.671][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:05.672][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:05.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.674][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.676][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:05.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:05.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.680][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:05.681][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:05.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.683][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.684][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:05.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:05.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:05.728][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-04-15 20:34:05.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:05.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:05.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:05.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:05.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:05.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:05.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:05.752][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[2024-04-15 20:34:05.754][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-04-15 20:34:05.755][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:05.756][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-04-15 20:34:05.757][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:05.759][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2024-04-15 20:34:05.760][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:05.761][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:05.763][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:05.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:05.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:05.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:05.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:05.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:05.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:05.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:05.776][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.777][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.785][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.790][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:05.791][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:05.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.793][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.794][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:05.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:05.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.798][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:05.799][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:05.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.801][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.803][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:05.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:05.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.807][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:05.808][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:05.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.810][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:05.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:05.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.815][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.816][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.818][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.819][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.823][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:05.824][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:05.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.826][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.827][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:05.829][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.830][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.832][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:05.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.836][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.837][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.839][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:05.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.844][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:05.845][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:05.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.847][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.848][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:05.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:05.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.852][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:05.854][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:05.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.855][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.857][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:05.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:05.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.861][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:05.862][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:05.863][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.864][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.865][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:05.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:05.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:05.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:05.909][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-04-15 20:34:05.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:05.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:05.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:05.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:05.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:05.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:05.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:05.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:05.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:05.935][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-04-15 20:34:05.936][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:05.937][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-04-15 20:34:05.939][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:05.940][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2024-04-15 20:34:05.941][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:05.943][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:05.944][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:05.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:05.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:05.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:05.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:05.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:05.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:05.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:05.963][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.964][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.966][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:05.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:05.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.971][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:05.972][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:05.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.974][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.975][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:05.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:05.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.980][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:05.981][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:05.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.983][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.984][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:05.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:05.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.988][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:05.989][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:05.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.991][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.992][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.993][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:05.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.995][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:05.996][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:05.997][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:05.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:05.999][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.001][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:06.002][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.004][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.005][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:06.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.009][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.010][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.012][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.018][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:06.019][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:06.020][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.021][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.022][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:06.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:06.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.026][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:06.027][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:06.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.029][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.030][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:06.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:06.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.035][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:06.036][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:06.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.038][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:06.080][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-04-15 20:34:06.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:06.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:06.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:06.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:06.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:06.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:06.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:06.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:06.105][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-04-15 20:34:06.106][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:06.108][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-04-15 20:34:06.110][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:06.111][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2024-04-15 20:34:06.112][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:06.114][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:06.115][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:06.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:06.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:06.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:06.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:06.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:06.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:06.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:06.129][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.130][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.132][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.138][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:06.139][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:06.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.147][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.148][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:06.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:06.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.152][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:06.153][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:06.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.155][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.156][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:06.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:06.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.160][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:06.161][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:06.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.163][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.165][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.166][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.168][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.169][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:06.170][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:06.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.172][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.173][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:06.174][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.176][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.177][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:06.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.182][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.183][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.184][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.190][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:06.191][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:06.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.193][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.194][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:06.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:06.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.198][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:06.199][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:06.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.201][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.202][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:06.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:06.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.206][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:06.207][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:06.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.209][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:06.249][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-04-15 20:34:06.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:06.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:06.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:06.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:06.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:06.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:06.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:06.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:06.273][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-04-15 20:34:06.274][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:06.276][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-04-15 20:34:06.277][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:06.279][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2024-04-15 20:34:06.280][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:06.281][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:06.282][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:06.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:06.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:06.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:06.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:06.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:06.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:06.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:06.297][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.298][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.300][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.305][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:06.306][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:06.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.308][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.309][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:06.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:06.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.313][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:06.314][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:06.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.316][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.354][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:06.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:06.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.360][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:06.361][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:06.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.363][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:06.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:06.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.368][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.369][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.371][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.373][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.377][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:06.378][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:06.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.380][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.381][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:06.382][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.383][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.384][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.385][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:06.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.389][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.390][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.392][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.397][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:06.398][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:06.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.400][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.402][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:06.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:06.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.405][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:06.407][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:06.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.408][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.410][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:06.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:06.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.413][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:06.414][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:06.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.416][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.418][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:06.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:06.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:06.460][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-04-15 20:34:06.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:06.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:06.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:06.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:06.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:06.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:06.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:06.483][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.DEBUG[2024-04-15 20:34:06.484][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-04-15 20:34:06.485][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:06.487][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-04-15 20:34:06.488][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:06.490][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2024-04-15 20:34:06.491][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:06.493][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:06.494][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:06.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:06.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:06.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:06.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:06.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:06.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:06.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:06.508][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.509][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.511][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.516][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:06.517][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:06.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.519][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.520][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:06.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:06.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.524][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:06.525][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:06.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.527][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.534][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:06.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:06.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.539][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:06.540][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:06.541][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.542][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.543][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:06.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:06.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.547][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.548][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.550][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.551][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.555][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:06.556][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:06.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.558][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.560][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:06.561][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.563][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.564][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:06.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.568][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.569][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.571][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.576][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:06.577][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:06.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.579][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.581][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:06.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:06.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.585][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:06.586][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:06.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.588][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.589][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:06.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:06.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.593][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:06.594][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:06.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.596][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.597][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:06.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:06.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:06.639][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-04-15 20:34:06.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:06.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:06.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:06.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:06.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:06.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:06.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:06.690][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.DEBUG[2024-04-15 20:34:06.691][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-04-15 20:34:06.693][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:06.695][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-04-15 20:34:06.697][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:06.699][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2024-04-15 20:34:06.700][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:06.701][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:06.703][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:06.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:06.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:06.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:06.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:06.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:06.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:06.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:06.719][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.721][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.723][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.729][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:06.730][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:06.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.732][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.734][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:06.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:06.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.739][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:06.740][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:06.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.742][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.758][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:06.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:06.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.764][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:06.765][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:06.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.767][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:06.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:06.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.772][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.774][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.776][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.777][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.781][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:06.782][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:06.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.784][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.786][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:06.787][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.789][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.790][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:06.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.794][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.796][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.798][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.803][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:06.804][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:06.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.806][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.808][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:06.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:06.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.812][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:06.813][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:06.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.815][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.816][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:06.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:06.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.821][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:06.822][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:06.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.824][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.825][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:06.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:06.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:06.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:06.878][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-04-15 20:34:06.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:06.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:06.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:06.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:06.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:06.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:06.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:06.907][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[2024-04-15 20:34:06.908][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-04-15 20:34:06.909][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:06.911][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-04-15 20:34:06.912][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:06.914][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2024-04-15 20:34:06.915][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:06.917][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:06.918][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:06.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:06.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:06.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:06.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:06.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:06.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:06.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:06.931][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.932][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.934][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:06.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:06.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.939][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:06.940][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:06.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.942][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.943][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:06.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:06.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.947][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:06.948][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:06.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.950][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.956][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:06.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:06.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.960][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:06.961][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:06.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.963][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:06.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:06.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.968][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.969][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.971][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.972][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:06.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.976][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:06.977][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:06.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.979][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.980][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:06.981][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.983][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.985][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:06.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:06.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.989][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.990][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.991][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:06.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:06.997][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:06.998][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:06.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:06.999][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.001][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:07.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:07.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.005][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:07.006][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:07.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.007][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.009][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:07.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:07.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.013][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:07.014][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:07.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.015][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.017][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:07.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:07.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.059][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-04-15 20:34:07.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:07.081][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-04-15 20:34:07.082][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:07.084][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-04-15 20:34:07.085][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:07.087][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2024-04-15 20:34:07.088][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:07.089][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:07.090][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:07.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:07.103][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.104][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.106][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.111][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:07.112][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:07.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.114][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.115][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:07.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:07.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.119][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:07.120][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:07.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.122][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.128][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:07.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:07.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.132][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:07.133][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:07.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.135][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:07.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:07.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.140][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:07.141][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:07.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.143][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.144][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:07.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:07.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.148][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:07.149][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:07.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.151][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.152][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:07.153][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.155][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.157][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:07.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.161][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:07.162][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:07.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.163][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:07.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:07.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.169][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:07.170][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:07.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.171][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.173][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:07.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:07.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.177][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:07.178][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:07.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.179][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.181][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:07.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:07.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.185][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:07.186][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:07.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.188][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.189][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:07.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:07.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.231][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-04-15 20:34:07.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:07.254][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-04-15 20:34:07.255][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:07.256][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-04-15 20:34:07.258][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:07.259][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2024-04-15 20:34:07.260][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:07.262][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:07.263][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:07.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:07.276][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.277][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.279][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.284][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:07.285][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:07.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.287][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.288][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:07.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:07.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.292][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:07.293][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:07.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.300][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.301][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:07.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:07.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.305][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:07.306][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:07.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.308][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:07.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:07.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.313][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:07.314][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:07.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.316][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:07.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:07.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.321][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:07.322][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:07.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.324][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.325][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:07.327][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.328][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.330][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:07.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.334][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:07.335][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:07.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.337][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:07.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:07.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.342][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:07.343][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:07.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.345][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:07.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:07.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.350][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:07.351][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:07.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.353][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.354][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:07.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:07.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.358][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:07.359][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:07.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.361][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.362][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:07.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:07.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.405][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-04-15 20:34:07.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:07.428][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-04-15 20:34:07.429][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:07.431][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-04-15 20:34:07.432][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:07.433][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2024-04-15 20:34:07.435][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:07.436][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:07.437][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:07.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:07.450][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.451][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.452][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.458][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:07.459][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:07.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.461][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.462][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:07.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:07.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.466][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:07.467][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:07.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.474][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.475][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:07.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:07.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.479][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:07.480][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:07.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.482][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.483][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:07.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:07.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.487][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:07.488][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:07.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.490][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.491][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:07.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:07.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.495][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:07.496][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:07.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.498][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.499][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:07.500][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.502][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.503][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:07.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.507][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:07.508][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:07.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.510][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:07.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:07.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.515][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:07.516][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:07.517][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.518][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:07.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:07.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.524][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:07.525][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:07.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.527][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.528][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:07.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:07.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.532][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:07.533][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:07.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.535][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.536][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:07.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:07.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:07.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:07.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:07.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.578][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-04-15 20:34:07.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.608][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[2024-04-15 20:34:07.612][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:07.613][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-04-15 20:34:07.615][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:07.616][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-04-15 20:34:07.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.628][FUN] Functions in observer BiodbConfig: [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[2024-04-15 20:34:07.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.655][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[2024-04-15 20:34:07.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:07.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.714][FUN] Functions in observer BiodbConfig: [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[2024-04-15 20:34:07.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.744][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.TRACE[2024-04-15 20:34:07.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.766][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[2024-04-15 20:34:07.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:07.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.809][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.TRACE[2024-04-15 20:34:07.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:07.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.858][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.TRACE[2024-04-15 20:34:07.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:07.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.902][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[2024-04-15 20:34:07.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.921][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:07.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:07.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:07.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:07.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:07.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:07.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:07.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:07.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:07.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:07.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:07.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:07.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:07.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:07.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:08.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:08.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:08.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:08.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:08.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:08.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:08.015][FUN] Functions in observer BiodbConfig: [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[2024-04-15 20:34:08.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:08.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:08.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:08.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:08.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:08.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:08.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:08.037][FUN] Functions in observer BiodbConfig: [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[2024-04-15 20:34:08.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:08.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:08.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:08.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:08.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:08.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:08.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:08.058][FUN] Functions in observer BiodbConfig: [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[2024-04-15 20:34:08.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:08.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:08.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:08.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:08.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:08.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:08.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:08.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:08.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:08.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:08.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:08.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:08.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:08.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:08.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:08.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:08.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:08.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:08.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:08.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:08.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:08.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:08.151][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.INFO [2024-04-15 20:34:08.160][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2024-04-15 20:34:08.161][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:08.163][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:08.164][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-04-15 20:34:08.614][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-04-15 20:34:09.086][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:09.089][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2024-04-15 20:34:09.104][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2024-04-15 20:34:09.108][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[2024-04-15 20:34:09.125][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:09.127][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:09.143][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-04-15 20:34:09.626][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-04-15 20:34:10.080][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:10.082][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2024-04-15 20:34:10.086][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2024-04-15 20:34:10.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:10.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:10.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:10.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:10.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:10.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:10.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:10.100][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-04-15 20:34:10.101][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:10.102][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-04-15 20:34:10.104][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-04-15 20:34:10.105][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-04-15 20:34:10.106][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:10.107][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-04-15 20:34:10.108][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-04-15 20:34:10.109][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-04-15 20:34:10.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:10.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:10.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:10.118][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:10.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:10.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:10.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:10.121][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2024-04-15 20:34:10.124][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:10.125][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:10.126][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2024-04-15 20:34:10.578][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2024-04-15 20:34:11.089][scheduler$sendRequest] Saving content of request to cache.
biodb.INFO [2024-04-15 20:34:11.093][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2024-04-15 20:34:11.095][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2024-04-15 20:34:11.099][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2024-04-15 20:34:11.102][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2024-04-15 20:34:11.104][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-04-15 20:34:11.105][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:11.107][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:11.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:11.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:11.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:11.118][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:11.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:11.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:11.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:11.125][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:11.126][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:11.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.128][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:11.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:11.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.134][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:11.135][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:11.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.138][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.139][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:11.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:11.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.158][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:11.170][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:11.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.172][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.174][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:11.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:11.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.178][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:11.179][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:11.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.181][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.182][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:11.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:11.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.186][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:11.187][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:11.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.189][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.191][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:11.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:11.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.195][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:11.196][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:11.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.198][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.199][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:11.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:11.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.203][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:11.204][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:11.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.206][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.207][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:11.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:11.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.212][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.213][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.215][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.220][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:11.221][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:11.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.223][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.225][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:11.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:11.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.229][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:11.230][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:11.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.232][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.233][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:11.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:11.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.237][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:11.238][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:11.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.240][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.241][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:11.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:11.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:11.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:11.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:11.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:11.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:11.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:11.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:11.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:11.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:11.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:11.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:11.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:11.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:11.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:11.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:11.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:11.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:11.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:11.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:11.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:11.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:11.285][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-04-15 20:34:11.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:11.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:11.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:11.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:11.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:11.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:11.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:11.306][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[2024-04-15 20:34:11.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:11.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:11.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:11.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:11.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:11.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:11.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:11.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:11.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:11.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:11.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:11.328][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-04-15 20:34:11.329][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:11.331][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-04-15 20:34:11.332][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-04-15 20:34:11.333][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-04-15 20:34:11.334][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:11.340][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-04-15 20:34:11.341][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-04-15 20:34:11.342][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-04-15 20:34:11.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:11.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:11.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:11.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:11.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:11.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:11.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:11.367][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2024-04-15 20:34:11.369][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:11.370][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:11.372][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2024-04-15 20:34:11.819][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2024-04-15 20:34:12.274][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:12.276][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2024-04-15 20:34:12.280][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2024-04-15 20:34:12.282][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2024-04-15 20:34:12.284][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-04-15 20:34:12.285][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:12.286][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:12.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:12.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:12.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:12.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:12.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:12.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:12.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:12.299][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:12.300][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:12.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.302][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:12.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:12.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.307][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:12.308][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:12.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.310][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.312][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:12.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:12.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.316][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:12.317][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:12.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.319][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.320][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:12.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:12.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.324][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:12.325][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:12.326][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.327][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:12.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:12.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.332][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:12.333][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:12.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.335][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:12.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:12.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.340][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:12.341][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:12.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.342][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.344][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:12.345][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:12.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.346][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.348][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:12.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:12.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.351][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:12.352][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:12.353][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.354][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:12.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:12.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.359][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:12.360][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:12.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.362][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.363][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:12.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:12.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.367][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:12.368][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:12.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.370][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.371][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:12.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:12.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.375][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:12.376][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:12.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.378][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.379][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:12.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:12.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:12.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:12.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:12.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:12.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:12.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:12.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:12.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:12.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:12.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:12.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:12.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:12.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:12.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:12.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:12.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:12.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:12.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:12.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:12.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:12.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:12.429][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-04-15 20:34:12.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:12.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:12.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:12.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:12.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:12.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:12.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:12.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:12.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:12.459][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[2024-04-15 20:34:12.462][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:12.464][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:12.465][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-04-15 20:34:13.063][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-04-15 20:34:13.681][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:13.684][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-04-15 20:34:13.688][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-04-15 20:34:13.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:13.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:13.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:13.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:13.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:13.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:13.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:13.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:13.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:13.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:13.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:13.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:13.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:13.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:13.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:13.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:13.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:13.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:13.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:13.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:13.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:13.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:13.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:13.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:13.781][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:13.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:13.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:13.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:13.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:13.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:13.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:13.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:13.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:13.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:13.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:13.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:13.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:13.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:13.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:13.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:13.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:13.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:13.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:13.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:13.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:13.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:13.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:13.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:13.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:13.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:13.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:13.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:13.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:13.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:13.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:13.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:13.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:13.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:13.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:13.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:13.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:13.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:13.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:13.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:13.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:13.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:13.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:13.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:13.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:13.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:13.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:13.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:13.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:13.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:13.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:13.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:13.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:13.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:13.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:13.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:13.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:13.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:13.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:13.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:13.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:13.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:13.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:13.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:13.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:13.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:13.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:13.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:13.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:13.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:13.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:13.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:13.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:13.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:13.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.184][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.222][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:14.226][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:14.227][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-04-15 20:34:14.228][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:14.230][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-04-15 20:34:14.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.432][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.653][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.654][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.697][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:14.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:14.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.777][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-04-15 20:34:14.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-04-15 20:34:14.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-04-15 20:34:14.788][biodb::testThat]
biodb.INFO [2024-04-15 20:34:14.788][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-04-15 20:34:14.789][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:14.790][biodb::testThat]
biodb.TRACE[2024-04-15 20:34:14.793][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-04-15 20:34:14.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-04-15 20:34:14.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:14.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:14.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:14.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:14.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:14.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:14.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:14.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:14.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:14.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:14.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:14.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:14.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:14.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:14.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:14.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:14.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:14.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:14.826][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:14.829][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:14.830][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:14.832][private$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[2024-04-15 20:34:15.277][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[2024-04-15 20:34:15.722][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:15.724][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-04-15 20:34:15.727][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-04-15 20:34:15.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:15.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:15.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:15.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:15.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:15.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:15.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:15.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:15.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:15.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:15.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:15.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:15.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:15.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:15.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:15.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:15.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:15.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:15.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:15.757][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[2024-04-15 20:34:15.762][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:15.763][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:15.765][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-04-15 20:34:16.212][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-04-15 20:34:16.657][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:16.661][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-04-15 20:34:16.668][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-04-15 20:34:16.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:16.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:16.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:16.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:16.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:16.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:16.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:16.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:16.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:16.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:16.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:16.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:16.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:16.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:16.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:16.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:16.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:16.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:16.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:16.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:16.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:16.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:16.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:16.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:16.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:16.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:16.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:16.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:16.771][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-04-15 20:34:16.773][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:16.774][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:16.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:16.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:16.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:16.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:16.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:16.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.792][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:16.793][private$selectFields]
biodb.TRACE[2024-04-15 20:34:16.794][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:16.795][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:16.796][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:16.798][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.801][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.802][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.803][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.805][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.806][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:16.807][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:16.808][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.809][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.811][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.812][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:16.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.835][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-04-15 20:34:16.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:16.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:16.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:16.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:16.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:16.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:16.846][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[2024-04-15 20:34:16.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.855][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:16.856][private$selectFields]
biodb.TRACE[2024-04-15 20:34:16.857][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:16.858][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:16.859][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:16.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.861][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.863][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.864][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.865][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.867][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.868][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:16.869][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:16.870][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.873][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.874][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:16.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.887][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-04-15 20:34:16.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:16.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:16.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:16.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:16.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:16.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:16.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:16.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.906][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:16.907][private$selectFields]
biodb.TRACE[2024-04-15 20:34:16.908][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:16.919][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:16.920][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:16.922][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.923][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.925][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.926][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.927][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.928][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.929][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.930][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:16.931][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:16.932][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.933][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.935][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.936][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:16.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:16.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.949][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-04-15 20:34:16.950][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-04-15 20:34:16.951][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-04-15 20:34:16.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:16.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:16.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:16.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:16.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:16.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:16.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:16.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:16.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:16.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:16.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:17.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:17.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:17.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:17.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:17.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:17.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:17.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:17.084][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:17.088][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:17.089][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:17.090][private$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[2024-04-15 20:34:17.540][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[2024-04-15 20:34:18.007][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:18.011][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2024-04-15 20:34:18.030][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2024-04-15 20:34:18.039][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[2024-04-15 20:34:18.045][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:18.046][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:18.048][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-04-15 20:34:18.529][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-04-15 20:34:19.013][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:19.044][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2024-04-15 20:34:19.053][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2024-04-15 20:34:19.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:19.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:19.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:19.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:19.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:19.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:19.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:19.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:19.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:19.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:19.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:19.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:19.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:19.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:19.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:19.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:19.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:19.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:19.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:19.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:19.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:19.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:19.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:19.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:19.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:19.280][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-04-15 20:34:19.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:19.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:19.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:19.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:19.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:19.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:19.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:19.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.381][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.383][private$selectFields]
biodb.TRACE[2024-04-15 20:34:19.385][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:19.387][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:19.389][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.391][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.393][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.397][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.399][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.401][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.405][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.408][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.437][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.441][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.446][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.452][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.455][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:19.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.490][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-04-15 20:34:19.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:19.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:19.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:19.502][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:19.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:19.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:19.506][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.TRACE[2024-04-15 20:34:19.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.558][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.559][private$selectFields]
biodb.TRACE[2024-04-15 20:34:19.561][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:19.562][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:19.563][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.565][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.566][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.568][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.570][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.571][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.574][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.575][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.590][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.592][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.593][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.596][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.597][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:19.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.613][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-04-15 20:34:19.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:19.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:19.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:19.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:19.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:19.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:19.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:19.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.643][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.645][private$selectFields]
biodb.TRACE[2024-04-15 20:34:19.646][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:19.647][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:19.649][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.651][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.653][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.656][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.657][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.658][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.662][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.663][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.665][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.671][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.672][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:19.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.700][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-04-15 20:34:19.702][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-04-15 20:34:19.703][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-04-15 20:34:19.715][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-04-15 20:34:19.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-04-15 20:34:19.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-04-15 20:34:19.727][biodb::testThat]
biodb.INFO [2024-04-15 20:34:19.729][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-04-15 20:34:19.732][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:19.733][biodb::testThat]
biodb.TRACE[2024-04-15 20:34:19.740][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-04-15 20:34:19.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-04-15 20:34:19.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:19.773][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:19.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:19.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:19.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:19.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:19.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:19.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:19.795][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:19.801][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:19.804][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-04-15 20:34:19.806][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:19.810][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-04-15 20:34:19.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:19.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:19.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:19.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:19.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:19.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:19.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:19.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:19.851][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:19.856][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:19.858][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-04-15 20:34:19.860][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:19.862][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-04-15 20:34:19.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:19.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:19.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:19.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:19.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:19.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:19.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:19.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:19.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:19.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:19.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:19.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:19.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:19.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:19.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:19.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:19.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:19.936][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-04-15 20:34:19.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:19.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:19.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:19.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:19.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:19.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:19.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:19.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:19.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:19.986][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.988][private$selectFields]
biodb.TRACE[2024-04-15 20:34:19.990][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:19.992][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:19.993][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:19.995][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.997][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:19.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.000][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.001][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.002][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.004][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.005][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.007][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.009][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.011][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.015][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.017][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:20.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.039][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-04-15 20:34:20.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.060][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.TRACE[2024-04-15 20:34:20.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.073][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.074][private$selectFields]
biodb.TRACE[2024-04-15 20:34:20.076][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:20.078][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:20.079][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.080][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.082][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.086][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.088][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.090][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.093][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.095][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.096][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.100][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.104][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.106][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:20.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.130][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-04-15 20:34:20.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:20.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.163][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.165][private$selectFields]
biodb.TRACE[2024-04-15 20:34:20.166][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:20.168][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:20.169][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.171][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.173][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.175][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.177][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.179][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.182][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.184][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.185][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.186][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.189][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.190][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:20.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.208][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-04-15 20:34:20.209][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-04-15 20:34:20.210][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-04-15 20:34:20.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:20.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.273][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:20.281][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:20.287][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:20.291][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-04-15 20:34:20.294][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:20.296][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-04-15 20:34:20.302][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:20.309][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:20.312][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-04-15 20:34:20.314][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:20.317][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-04-15 20:34:20.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:20.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:20.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:20.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:20.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:20.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:20.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:20.411][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-04-15 20:34:20.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:20.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.434][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.435][private$selectFields]
biodb.TRACE[2024-04-15 20:34:20.436][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:20.437][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:20.438][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.439][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.440][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.442][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.443][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.444][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.447][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.448][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.449][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.450][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.451][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.453][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.455][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:20.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.470][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-04-15 20:34:20.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.483][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[2024-04-15 20:34:20.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.504][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.505][private$selectFields]
biodb.TRACE[2024-04-15 20:34:20.506][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:20.507][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:20.508][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.509][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.510][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.512][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.513][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.515][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.516][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.518][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.519][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.520][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.521][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.523][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.524][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:20.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.547][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-04-15 20:34:20.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:20.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.574][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.575][private$selectFields]
biodb.TRACE[2024-04-15 20:34:20.576][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:20.577][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:20.578][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.580][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.581][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.583][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.585][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.586][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.588][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.589][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.591][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.592][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.593][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.595][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.597][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:20.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.620][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-04-15 20:34:20.622][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-04-15 20:34:20.624][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-04-15 20:34:20.638][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-04-15 20:34:20.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-04-15 20:34:20.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-04-15 20:34:20.648][biodb::testThat]
biodb.INFO [2024-04-15 20:34:20.649][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-04-15 20:34:20.650][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:20.651][biodb::testThat]
biodb.TRACE[2024-04-15 20:34:20.658][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-04-15 20:34:20.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-04-15 20:34:20.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:20.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:20.714][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:20.720][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:20.722][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-04-15 20:34:20.725][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:20.727][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-04-15 20:34:20.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:20.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:20.803][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:20.807][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:20.809][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-04-15 20:34:20.811][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:20.813][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-04-15 20:34:20.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:20.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:20.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:20.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:20.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:20.880][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-04-15 20:34:20.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.890][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:20.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.899][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.900][private$selectFields]
biodb.TRACE[2024-04-15 20:34:20.901][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:20.902][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:20.903][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.904][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.905][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.907][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.908][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.910][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.913][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.915][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.917][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.918][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.920][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.923][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.924][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:20.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.949][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-04-15 20:34:20.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:20.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:20.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:20.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:20.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:20.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:20.968][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.TRACE[2024-04-15 20:34:20.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:20.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:20.986][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.987][private$selectFields]
biodb.TRACE[2024-04-15 20:34:20.990][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:20.992][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:20.994][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:20.996][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.998][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:20.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.001][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.003][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.005][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.008][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.009][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.010][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.011][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.012][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.016][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.018][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:21.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.046][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-04-15 20:34:21.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:21.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:21.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:21.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:21.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:21.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:21.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:21.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.077][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.078][private$selectFields]
biodb.TRACE[2024-04-15 20:34:21.080][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:21.081][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:21.083][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.085][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.087][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.091][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.093][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.095][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.096][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.098][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.099][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.100][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.101][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.103][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.106][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.108][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:21.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.131][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-04-15 20:34:21.133][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-04-15 20:34:21.134][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-04-15 20:34:21.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:21.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:21.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:21.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:21.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:21.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:21.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:21.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:21.208][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:21.212][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:21.214][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-04-15 20:34:21.216][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:21.219][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-04-15 20:34:21.225][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:21.231][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:21.234][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-04-15 20:34:21.236][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:21.239][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-04-15 20:34:21.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:21.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:21.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:21.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:21.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:21.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:21.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:21.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:21.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:21.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:21.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:21.292][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:21.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:21.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:21.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:21.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:21.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:21.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:21.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:21.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:21.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:21.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:21.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:21.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:21.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:21.374][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-04-15 20:34:21.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:21.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:21.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:21.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:21.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:21.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:21.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:21.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.413][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.414][private$selectFields]
biodb.TRACE[2024-04-15 20:34:21.415][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:21.416][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:21.417][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.419][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.421][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.423][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.424][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.426][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.428][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.432][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.434][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.435][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.436][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.437][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.441][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.443][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:21.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.468][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-04-15 20:34:21.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:21.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:21.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:21.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:21.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:21.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:21.481][FUN] Functions in observer BiodbConfig: [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[2024-04-15 20:34:21.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.491][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.492][private$selectFields]
biodb.TRACE[2024-04-15 20:34:21.493][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:21.494][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:21.496][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.497][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.498][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.500][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.501][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.502][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.505][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.506][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.508][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.510][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.512][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.514][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.515][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:21.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.534][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-04-15 20:34:21.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:21.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:21.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:21.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:21.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:21.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:21.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:21.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.567][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.569][private$selectFields]
biodb.TRACE[2024-04-15 20:34:21.571][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-04-15 20:34:21.572][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-04-15 20:34:21.574][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.575][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.576][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.580][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.581][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.582][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.594][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.596][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.598][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-04-15 20:34:21.599][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.601][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.605][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.607][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-04-15 20:34:21.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:21.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:21.627][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-04-15 20:34:21.628][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-04-15 20:34:21.630][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-04-15 20:34:21.666][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-04-15 20:34:21.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-04-15 20:34:21.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:21.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-04-15 20:34:21.677][biodb::testThat]
biodb.INFO [2024-04-15 20:34:21.679][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-04-15 20:34:21.680][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:21.681][biodb::testThat]
biodb.DEBUG[2024-04-15 20:34:21.685][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-04-15 20:34:21.687][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:21.691][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-04-15 20:34:21.693][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-04-15 20:34:21.696][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-04-15 20:34:21.698][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:21.700][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-04-15 20:34:21.703][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-04-15 20:34:21.704][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-04-15 20:34:21.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:21.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:21.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:21.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:21.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:21.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:21.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:21.727][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2024-04-15 20:34:21.731][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:21.732][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:21.734][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2024-04-15 20:34:22.209][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2024-04-15 20:34:22.682][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:22.686][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2024-04-15 20:34:22.692][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2024-04-15 20:34:22.697][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2024-04-15 20:34:22.699][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-04-15 20:34:22.701][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:22.703][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:22.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:22.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:22.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:22.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:22.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:22.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:22.717][FUN] Functions in observer BiodbConfig: [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[2024-04-15 20:34:22.720][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:22.721][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:22.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.723][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:22.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:22.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.728][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:22.729][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:22.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.732][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.733][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:22.734][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:22.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.737][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.738][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:22.740][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:22.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.742][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.743][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:22.744][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:22.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.747][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.748][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:22.749][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:22.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.751][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.753][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:22.754][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:22.755][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.756][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.757][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:22.759][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:22.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.761][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.762][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:22.763][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:22.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.765][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.767][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:22.768][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:22.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.770][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.771][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:22.772][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:22.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.774][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:22.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:22.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:22.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:22.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:22.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:22.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:22.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:22.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:22.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:22.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:22.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:22.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:22.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:22.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:22.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:22.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:22.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:22.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:22.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:22.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:22.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:22.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:22.834][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-04-15 20:34:22.835][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-04-15 20:34:22.844][biodb::testThat]
biodb.INFO [2024-04-15 20:34:22.845][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-04-15 20:34:22.846][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:22.847][biodb::testThat]
biodb.DEBUG[2024-04-15 20:34:22.858][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-04-15 20:34:22.859][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-04-15 20:34:22.860][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-04-15 20:34:22.862][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2024-04-15 20:34:22.863][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2024-04-15 20:34:22.865][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-04-15 20:34:22.866][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:22.867][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-04-15 20:34:22.868][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-04-15 20:34:22.869][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-04-15 20:34:22.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:22.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:22.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:22.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:22.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:22.881][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:22.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:22.884][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2024-04-15 20:34:22.887][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:22.887][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:22.889][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2024-04-15 20:34:23.357][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2024-04-15 20:34:23.825][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:23.828][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2024-04-15 20:34:23.832][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2024-04-15 20:34:23.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:23.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:23.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:23.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:23.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:23.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:23.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:23.845][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2024-04-15 20:34:23.848][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:23.849][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:23.851][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2024-04-15 20:34:24.332][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2024-04-15 20:34:24.818][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:24.822][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2024-04-15 20:34:24.828][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2024-04-15 20:34:24.831][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:24.832][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:24.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:24.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:24.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:24.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:24.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:24.850][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2024-04-15 20:34:24.855][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:24.856][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:24.859][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2024-04-15 20:34:25.317][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2024-04-15 20:34:25.779][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:25.783][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2024-04-15 20:34:25.787][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2024-04-15 20:34:25.791][private$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[2024-04-15 20:34:25.792][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-04-15 20:34:25.794][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-04-15 20:34:25.795][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:25.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:25.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:25.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:25.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:25.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:25.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:25.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:25.826][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:25.829][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:25.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:25.833][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:25.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:25.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:25.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:25.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:25.904][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:25.908][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:25.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:25.914][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:25.917][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:25.920][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:25.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:25.924][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:25.928][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:25.930][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:25.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:25.935][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:25.938][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:25.941][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:25.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:25.945][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:25.949][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:25.951][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:25.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:25.956][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:25.959][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:25.961][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:25.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:25.966][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:25.969][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:25.972][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:25.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:25.976][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:25.979][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:25.982][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:25.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:25.986][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:25.990][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:25.992][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:25.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:25.997][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.000][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:26.002][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:26.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.007][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:26.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:26.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:26.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:26.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:26.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:26.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:26.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:26.105][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.107][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.111][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.124][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:26.126][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:26.129][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.131][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.134][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:26.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:26.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.143][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:26.146][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:26.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.150][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.153][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:26.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:26.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.163][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:26.165][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:26.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.170][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.173][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:26.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:26.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.182][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:26.184][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:26.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.189][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.192][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:26.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:26.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.201][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:26.204][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:26.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.208][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.211][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:26.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:26.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.220][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:26.222][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:26.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.227][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.230][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:26.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:26.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.238][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:26.241][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:26.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.245][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:26.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:26.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.257][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:26.259][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:26.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.263][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.266][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:26.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:26.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.275][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:26.278][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:26.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.282][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.285][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:26.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:26.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.314][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:26.317][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:26.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.321][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.324][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:26.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:26.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:26.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:26.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:26.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:26.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:26.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:26.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:26.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-04-15 20:34:26.427][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.430][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.434][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.447][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:26.450][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:26.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.454][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.457][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:26.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:26.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.467][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:26.470][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:26.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.474][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.477][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:26.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:26.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.487][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:26.490][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:26.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.494][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.497][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:26.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:26.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.507][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:26.509][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:26.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.514][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:26.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:26.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.527][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:26.529][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:26.531][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.533][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.536][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:26.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:26.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.546][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:26.549][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:26.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.553][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.556][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:26.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:26.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.565][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:26.568][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:26.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.572][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:26.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:26.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.584][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:26.587][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:26.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.591][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.595][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:26.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:26.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.604][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:26.607][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:26.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.612][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.615][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:26.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:26.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.625][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:26.628][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:26.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.632][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.635][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:26.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:26.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:26.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:26.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:26.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:26.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:26.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:26.823][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-04-15 20:34:26.825][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-04-15 20:34:26.827][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-04-15 20:34:26.849][biodb::testThat]
biodb.INFO [2024-04-15 20:34:26.851][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-04-15 20:34:26.853][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:26.855][biodb::testThat]
biodb.INFO [2024-04-15 20:34:26.901][biodb::testThat]
biodb.INFO [2024-04-15 20:34:26.903][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-04-15 20:34:26.905][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:26.907][biodb::testThat]
biodb.INFO [2024-04-15 20:34:26.921][biodb::testThat]
biodb.INFO [2024-04-15 20:34:26.923][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-04-15 20:34:26.924][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:26.926][biodb::testThat]
biodb.DEBUG[2024-04-15 20:34:26.930][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:26.936][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:26.938][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:26.942][private$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[2024-04-15 20:34:27.474][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[2024-04-15 20:34:28.130][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:28.133][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2024-04-15 20:34:28.138][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2024-04-15 20:34:28.152][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:28.153][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:28.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:28.156][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:28.157][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:28.158][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:28.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:28.160][ef$get] fields variable is a list.
biodb.INFO [2024-04-15 20:34:28.162][biodb::testThat]
biodb.INFO [2024-04-15 20:34:28.163][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2024-04-15 20:34:28.164][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:28.165][biodb::testThat]
biodb.ERROR[2024-04-15 20:34:28.180][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-04-15 20:34:28.212][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-04-15 20:34:28.226][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-04-15 20:34:28.228][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-04-15 20:34:28.229][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-04-15 20:34:28.230][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-04-15 20:34:28.231][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.232][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.234][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.235][FUN] Functions in observer BiodbConfig: [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 [2024-04-15 20:34:28.246][biodb::testContext]
biodb.INFO [2024-04-15 20:34:28.248][biodb::testContext] ********************************************************************************
biodb.INFO [2024-04-15 20:34:28.249][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-04-15 20:34:28.250][biodb::testContext] ********************************************************************************
biodb.INFO [2024-04-15 20:34:28.251][biodb::testContext]
biodb.INFO [2024-04-15 20:34:28.253][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.10.0.
biodb.DEBUG[2024-04-15 20:34:28.255][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.18-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-04-15 20:34:28.259][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-04-15 20:34:28.260][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-04-15 20:34:28.261][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-04-15 20:34:28.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.265][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-04-15 20:34:28.267][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-04-15 20:34:28.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.270][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-04-15 20:34:28.271][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-04-15 20:34:28.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.275][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-04-15 20:34:28.276][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-04-15 20:34:28.277][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-04-15 20:34:28.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.280][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[2024-04-15 20:34:28.281][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-04-15 20:34:28.282][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-04-15 20:34:28.283][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-04-15 20:34:28.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.287][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-04-15 20:34:28.288][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-04-15 20:34:28.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.291][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[2024-04-15 20:34:28.292][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-04-15 20:34:28.293][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-04-15 20:34:28.294][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-04-15 20:34:28.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.298][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-04-15 20:34:28.299][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-04-15 20:34:28.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.303][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-04-15 20:34:28.304][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-04-15 20:34:28.305][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-04-15 20:34:28.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.309][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-04-15 20:34:28.310][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-04-15 20:34:28.311][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-04-15 20:34:28.312][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-04-15 20:34:28.313][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-04-15 20:34:28.314][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-04-15 20:34:28.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.318][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-04-15 20:34:28.319][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-04-15 20:34:28.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.322][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-04-15 20:34:28.323][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-04-15 20:34:28.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.326][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[2024-04-15 20:34:28.327][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-04-15 20:34:28.328][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-04-15 20:34:28.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.332][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-04-15 20:34:28.333][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-04-15 20:34:28.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.336][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-04-15 20:34:28.337][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-04-15 20:34:28.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.341][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-04-15 20:34:28.342][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-04-15 20:34:28.345][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-04-15 20:34:28.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.349][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-04-15 20:34:28.350][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-04-15 20:34:28.351][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-04-15 20:34:28.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.355][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-04-15 20:34:28.357][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.358][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-04-15 20:34:28.359][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.360][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:28.361][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.362][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.363][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.364][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.365][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-04-15 20:34:28.366][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:28.367][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.368][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-04-15 20:34:28.369][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:28.370][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.371][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.372][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-04-15 20:34:28.372][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-04-15 20:34:28.372][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-04-15 20:34:28.372][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-04-15 20:34:28.372][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-04-15 20:34:28.373][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:34:28.381][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:28.383][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:28.385][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:28.386][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:28.387][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:28.389][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.390][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.391][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:28.392][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:28.392][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.393][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.395][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-04-15 20:34:28.397][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.398][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-04-15 20:34:28.399][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.400][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:28.400][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.401][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.402][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.403][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.404][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-04-15 20:34:28.405][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:28.406][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.407][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-04-15 20:34:28.408][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:28.409][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.410][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.411][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-04-15 20:34:28.411][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-04-15 20:34:28.411][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-04-15 20:34:28.411][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-04-15 20:34:28.411][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-04-15 20:34:28.412][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:34:28.413][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:28.414][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:28.415][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:28.416][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:28.417][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:28.418][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.419][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.420][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:28.421][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:28.422][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.423][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.424][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-04-15 20:34:28.426][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.427][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-04-15 20:34:28.428][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.429][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:28.430][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.431][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.432][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.433][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.434][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-04-15 20:34:28.435][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:28.436][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.437][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-04-15 20:34:28.438][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:28.439][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.440][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.441][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.442][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:34:28.443][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:28.444][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:28.445][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:28.446][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:28.447][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:28.448][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.449][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.450][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:28.451][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:28.452][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.453][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.454][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-04-15 20:34:28.456][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.457][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-04-15 20:34:28.458][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.459][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:28.460][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.461][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.462][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.463][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.464][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-04-15 20:34:28.465][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:28.466][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.467][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-04-15 20:34:28.468][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:28.469][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.470][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.471][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.472][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:34:28.473][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:28.474][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:28.475][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:28.476][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:28.477][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:28.478][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.479][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.480][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:28.482][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:28.484][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.485][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:28.488][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-04-15 20:34:28.489][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.499][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[2024-04-15 20:34:28.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.506][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[2024-04-15 20:34:28.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.553][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[2024-04-15 20:34:28.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.600][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[2024-04-15 20:34:28.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.607][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[2024-04-15 20:34:28.608][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-04-15 20:34:28.611][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-04-15 20:34:28.614][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-04-15 20:34:28.616][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-04-15 20:34:28.619][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-04-15 20:34:28.620][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-04-15 20:34:28.621][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-04-15 20:34:28.623][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-04-15 20:34:28.624][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-04-15 20:34:28.627][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-04-15 20:34:28.629][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-04-15 20:34:28.632][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-04-15 20:34:28.634][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-04-15 20:34:28.636][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-04-15 20:34:28.639][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-04-15 20:34:28.641][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-04-15 20:34:28.644][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-04-15 20:34:28.646][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-04-15 20:34:28.648][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-04-15 20:34:28.651][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-04-15 20:34:28.653][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-04-15 20:34:28.656][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-04-15 20:34:28.658][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-04-15 20:34:28.661][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-04-15 20:34:28.663][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-04-15 20:34:28.665][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-04-15 20:34:28.667][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-04-15 20:34:28.668][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-04-15 20:34:28.670][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-04-15 20:34:28.671][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-04-15 20:34:28.673][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-04-15 20:34:28.674][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-04-15 20:34:28.675][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-04-15 20:34:28.677][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-04-15 20:34:28.678][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-04-15 20:34:28.680][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-04-15 20:34:28.682][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-04-15 20:34:28.685][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-04-15 20:34:28.687][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-04-15 20:34:28.689][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-04-15 20:34:28.690][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-04-15 20:34:28.692][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-04-15 20:34:28.695][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-04-15 20:34:28.696][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-04-15 20:34:28.698][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-04-15 20:34:28.701][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-04-15 20:34:28.703][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-04-15 20:34:28.705][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-04-15 20:34:28.706][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-04-15 20:34:28.707][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-04-15 20:34:28.709][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-04-15 20:34:28.710][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-04-15 20:34:28.712][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-04-15 20:34:28.714][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-04-15 20:34:28.716][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-04-15 20:34:28.719][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-04-15 20:34:28.721][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-04-15 20:34:28.723][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-04-15 20:34:28.726][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-04-15 20:34:28.728][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-04-15 20:34:28.731][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-04-15 20:34:28.732][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-04-15 20:34:28.734][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-04-15 20:34:28.737][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-04-15 20:34:28.739][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-04-15 20:34:28.742][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-04-15 20:34:28.744][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-04-15 20:34:28.746][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-04-15 20:34:28.749][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-04-15 20:34:28.751][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-04-15 20:34:28.753][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-04-15 20:34:28.755][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-04-15 20:34:28.758][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-04-15 20:34:28.760][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-04-15 20:34:28.762][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-04-15 20:34:28.765][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-04-15 20:34:28.767][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-04-15 20:34:28.769][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-04-15 20:34:28.771][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-04-15 20:34:28.772][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-04-15 20:34:28.774][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-04-15 20:34:28.775][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-04-15 20:34:28.777][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-04-15 20:34:28.778][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-04-15 20:34:28.780][initialize] This is biodb version 1.10.0.
biodb.DEBUG[2024-04-15 20:34:28.781][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-04-15 20:34:28.782][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.785][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.786][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[2024-04-15 20:34:28.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.829][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[2024-04-15 20:34:28.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.839][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.DEBUG[2024-04-15 20:34:28.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.849][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[2024-04-15 20:34:28.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.859][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[2024-04-15 20:34:28.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.869][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[2024-04-15 20:34:28.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.883][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[2024-04-15 20:34:28.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.917][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[2024-04-15 20:34:28.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:28.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:28.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:28.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:28.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:28.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:28.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:28.944][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.18-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-04-15 20:34:28.945][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-04-15 20:34:28.947][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.948][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.949][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.950][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:28.951][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.953][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.954][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.955][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-04-15 20:34:28.956][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-04-15 20:34:28.957][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:28.958][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.959][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-04-15 20:34:28.960][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:28.961][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-04-15 20:34:28.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-04-15 20:34:28.961][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-04-15 20:34:28.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-04-15 20:34:28.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-04-15 20:34:28.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-04-15 20:34:28.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-04-15 20:34:28.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-04-15 20:34:28.961][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-04-15 20:34:28.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-04-15 20:34:28.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-04-15 20:34:28.963][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:28.964][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-04-15 20:34:28.964][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-04-15 20:34:28.964][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-04-15 20:34:28.965][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-04-15 20:34:28.966][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:28.967][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:28.968][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:28.969][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:28.970][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:28.971][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:28.972][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-04-15 20:34:28.972][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-04-15 20:34:28.973][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:28.974][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:28.975][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:28.976][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-04-15 20:34:28.976][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-04-15 20:34:28.978][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-04-15 20:34:28.979][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-04-15 20:34:28.981][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-04-15 20:34:28.983][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-04-15 20:34:28.984][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-04-15 20:34:28.986][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-04-15 20:34:28.989][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-04-15 20:34:28.990][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-04-15 20:34:28.992][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-04-15 20:34:28.993][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-04-15 20:34:28.995][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-04-15 20:34:28.996][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-04-15 20:34:28.997][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-04-15 20:34:28.998][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-04-15 20:34:29.000][biodb::testThat]
biodb.INFO [2024-04-15 20:34:29.001][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2024-04-15 20:34:29.002][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:29.003][biodb::testThat]
biodb.DEBUG[2024-04-15 20:34:29.015][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-04-15 20:34:29.019][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:29.021][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:29.022][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2024-04-15 20:34:29.469][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2024-04-15 20:34:30.130][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:30.136][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2024-04-15 20:34:30.144][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2024-04-15 20:34:30.153][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:30.160][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:30.162][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:30.166][private$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[2024-04-15 20:34:30.651][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[2024-04-15 20:34:31.095][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:31.098][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2024-04-15 20:34:31.105][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2024-04-15 20:34:31.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:31.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:31.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:31.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:31.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:31.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:31.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:31.129][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[2024-04-15 20:34:31.135][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:31.137][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:31.140][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-04-15 20:34:31.596][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-04-15 20:34:32.041][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:32.044][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2024-04-15 20:34:32.048][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2024-04-15 20:34:32.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:32.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:32.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:32.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:32.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:32.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:32.060][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[2024-04-15 20:34:32.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:32.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:32.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:32.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:32.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:32.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:32.090][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[2024-04-15 20:34:32.095][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:32.099][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:32.101][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-04-15 20:34:32.102][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:32.103][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-04-15 20:34:32.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:32.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:32.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:32.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:32.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:32.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:32.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:32.117][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:32.120][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:32.122][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-04-15 20:34:32.123][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:32.124][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-04-15 20:34:32.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:32.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:32.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:32.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:32.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:32.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:32.136][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[2024-04-15 20:34:32.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:32.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:32.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:32.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:32.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:32.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:32.147][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[2024-04-15 20:34:32.151][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:32.154][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:32.176][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-04-15 20:34:32.178][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:32.179][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-04-15 20:34:32.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:32.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:32.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:32.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:32.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:32.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:32.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:32.192][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:32.195][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:32.196][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-04-15 20:34:32.197][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:32.199][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-04-15 20:34:32.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:32.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:32.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:32.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:32.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:32.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:32.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:32.211][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:32.214][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:32.215][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:32.217][private$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[2024-04-15 20:34:32.665][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[2024-04-15 20:34:33.121][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:33.126][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2024-04-15 20:34:33.134][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2024-04-15 20:34:33.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:33.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:33.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:33.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:33.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:33.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:33.155][FUN] Functions in observer BiodbConfig: [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 [2024-04-15 20:34:33.167][biodb::testThat]
biodb.INFO [2024-04-15 20:34:33.169][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2024-04-15 20:34:33.170][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:33.172][biodb::testThat]
biodb.DEBUG[2024-04-15 20:34:33.178][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[2024-04-15 20:34:33.184][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:33.185][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:33.187][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-04-15 20:34:33.665][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-04-15 20:34:34.132][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:34.136][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2024-04-15 20:34:34.141][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2024-04-15 20:34:34.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:34.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:34.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:34.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:34.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:34.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:34.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:34.162][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:34.166][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:34.167][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:34.169][private$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[2024-04-15 20:34:34.618][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[2024-04-15 20:34:35.077][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:35.081][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2024-04-15 20:34:35.086][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2024-04-15 20:34:35.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:35.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:35.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:35.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.121][FUN] Functions in observer BiodbConfig: [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 [2024-04-15 20:34:35.132][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-04-15 20:34:35.136][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-04-15 20:34:35.138][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-04-15 20:34:35.141][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-04-15 20:34:35.143][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:35.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:35.147][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.150][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.152][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.INFO [2024-04-15 20:34:35.161][biodb::testContext]
biodb.INFO [2024-04-15 20:34:35.163][biodb::testContext] ********************************************************************************
biodb.INFO [2024-04-15 20:34:35.165][biodb::testContext] Test context - Test web services
biodb.INFO [2024-04-15 20:34:35.166][biodb::testContext] ********************************************************************************
biodb.INFO [2024-04-15 20:34:35.168][biodb::testContext]
biodb.INFO [2024-04-15 20:34:35.172][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.10.0.
biodb.DEBUG[2024-04-15 20:34:35.176][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.18-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-04-15 20:34:35.185][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-04-15 20:34:35.187][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-04-15 20:34:35.189][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-04-15 20:34:35.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.536][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-04-15 20:34:35.538][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-04-15 20:34:35.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.545][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-04-15 20:34:35.547][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-04-15 20:34:35.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.553][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-04-15 20:34:35.555][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-04-15 20:34:35.557][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-04-15 20:34:35.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.563][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-04-15 20:34:35.565][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-04-15 20:34:35.566][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-04-15 20:34:35.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.572][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-04-15 20:34:35.574][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-04-15 20:34:35.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.581][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-04-15 20:34:35.582][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-04-15 20:34:35.583][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-04-15 20:34:35.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.587][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-04-15 20:34:35.588][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-04-15 20:34:35.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.590][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[2024-04-15 20:34:35.591][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-04-15 20:34:35.592][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-04-15 20:34:35.594][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-04-15 20:34:35.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.600][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-04-15 20:34:35.602][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-04-15 20:34:35.604][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-04-15 20:34:35.605][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-04-15 20:34:35.607][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-04-15 20:34:35.609][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-04-15 20:34:35.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.616][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-04-15 20:34:35.617][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-04-15 20:34:35.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.623][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-04-15 20:34:35.625][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-04-15 20:34:35.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.631][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-04-15 20:34:35.633][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-04-15 20:34:35.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.640][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-04-15 20:34:35.642][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-04-15 20:34:35.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.648][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-04-15 20:34:35.650][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-04-15 20:34:35.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.656][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-04-15 20:34:35.658][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-04-15 20:34:35.663][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-04-15 20:34:35.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.669][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[2024-04-15 20:34:35.671][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-04-15 20:34:35.672][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-04-15 20:34:35.673][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-04-15 20:34:35.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.680][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-04-15 20:34:35.683][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:35.686][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-04-15 20:34:35.688][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.690][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:35.692][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.693][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:35.695][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:35.697][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:34:35.699][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-04-15 20:34:35.701][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:35.703][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.705][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-04-15 20:34:35.707][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:35.708][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.709][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.711][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-04-15 20:34:35.711][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-04-15 20:34:35.711][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-04-15 20:34:35.711][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-04-15 20:34:35.711][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-04-15 20:34:35.713][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:34:35.715][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:35.716][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:35.718][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:35.720][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:35.721][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:35.723][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:35.724][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.726][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:35.727][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:35.728][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:35.729][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.731][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-04-15 20:34:35.733][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:35.735][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-04-15 20:34:35.736][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.737][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:35.739][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.740][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:35.741][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:35.742][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:34:35.743][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-04-15 20:34:35.745][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:35.747][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.748][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-04-15 20:34:35.750][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:35.751][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.752][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.753][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-04-15 20:34:35.753][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-04-15 20:34:35.753][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-04-15 20:34:35.753][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-04-15 20:34:35.753][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-04-15 20:34:35.754][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:34:35.755][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:35.756][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:35.757][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:35.759][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:35.761][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:35.762][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:35.764][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.766][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:35.768][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:35.769][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:35.771][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.773][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-04-15 20:34:35.775][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.777][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-04-15 20:34:35.778][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.779][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:35.781][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.782][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:35.784][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:35.786][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:34:35.788][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-04-15 20:34:35.789][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:35.791][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:35.792][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-04-15 20:34:35.794][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:35.796][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.798][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.800][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.802][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:34:35.804][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:35.805][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:35.807][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:35.809][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:35.811][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:35.812][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:35.814][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.816][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:35.817][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:35.819][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:35.821][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.823][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-04-15 20:34:35.826][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.828][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-04-15 20:34:35.830][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.831][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:35.833][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.835][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:35.837][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:35.840][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:34:35.843][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-04-15 20:34:35.845][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:35.848][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:35.851][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-04-15 20:34:35.853][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:35.856][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.859][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:35.861][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.863][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:34:35.866][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:35.867][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:35.869][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:35.870][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:35.872][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:35.873][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:35.874][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.875][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:35.876][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:35.878][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:35.880][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:35.882][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-04-15 20:34:35.884][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.885][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[2024-04-15 20:34:35.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.893][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[2024-04-15 20:34:35.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.917][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[2024-04-15 20:34:35.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.940][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.DEBUG[2024-04-15 20:34:35.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:35.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:35.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:35.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:35.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:35.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.011][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-04-15 20:34:36.013][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-04-15 20:34:36.015][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-04-15 20:34:36.017][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-04-15 20:34:36.021][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-04-15 20:34:36.024][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-04-15 20:34:36.027][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-04-15 20:34:36.029][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-04-15 20:34:36.032][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-04-15 20:34:36.044][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-04-15 20:34:36.047][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-04-15 20:34:36.050][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-04-15 20:34:36.052][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-04-15 20:34:36.055][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-04-15 20:34:36.058][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-04-15 20:34:36.061][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-04-15 20:34:36.063][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-04-15 20:34:36.066][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-04-15 20:34:36.069][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-04-15 20:34:36.071][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-04-15 20:34:36.074][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-04-15 20:34:36.076][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-04-15 20:34:36.079][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-04-15 20:34:36.081][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-04-15 20:34:36.084][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-04-15 20:34:36.086][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-04-15 20:34:36.087][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-04-15 20:34:36.089][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-04-15 20:34:36.091][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-04-15 20:34:36.092][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-04-15 20:34:36.093][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-04-15 20:34:36.095][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-04-15 20:34:36.096][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-04-15 20:34:36.097][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-04-15 20:34:36.099][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-04-15 20:34:36.101][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-04-15 20:34:36.103][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-04-15 20:34:36.105][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-04-15 20:34:36.108][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-04-15 20:34:36.110][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-04-15 20:34:36.112][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-04-15 20:34:36.114][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-04-15 20:34:36.117][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-04-15 20:34:36.119][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-04-15 20:34:36.122][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-04-15 20:34:36.124][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-04-15 20:34:36.126][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-04-15 20:34:36.129][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-04-15 20:34:36.131][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-04-15 20:34:36.134][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-04-15 20:34:36.135][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-04-15 20:34:36.137][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-04-15 20:34:36.138][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-04-15 20:34:36.140][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-04-15 20:34:36.142][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-04-15 20:34:36.144][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-04-15 20:34:36.146][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-04-15 20:34:36.149][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-04-15 20:34:36.151][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-04-15 20:34:36.152][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-04-15 20:34:36.153][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-04-15 20:34:36.155][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-04-15 20:34:36.156][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-04-15 20:34:36.157][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-04-15 20:34:36.159][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-04-15 20:34:36.160][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-04-15 20:34:36.161][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-04-15 20:34:36.163][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-04-15 20:34:36.164][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-04-15 20:34:36.165][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-04-15 20:34:36.166][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-04-15 20:34:36.169][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-04-15 20:34:36.171][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-04-15 20:34:36.173][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-04-15 20:34:36.175][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-04-15 20:34:36.178][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-04-15 20:34:36.180][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-04-15 20:34:36.182][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-04-15 20:34:36.185][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-04-15 20:34:36.187][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-04-15 20:34:36.189][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-04-15 20:34:36.192][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-04-15 20:34:36.194][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-04-15 20:34:36.197][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-04-15 20:34:36.200][initialize] This is biodb version 1.10.0.
biodb.DEBUG[2024-04-15 20:34:36.202][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-04-15 20:34:36.204][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.207][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.229][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[2024-04-15 20:34:36.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.239][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[2024-04-15 20:34:36.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.276][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[2024-04-15 20:34:36.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.286][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[2024-04-15 20:34:36.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.336][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[2024-04-15 20:34:36.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:36.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:36.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:36.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:36.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:36.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:36.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:36.358][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.18-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-04-15 20:34:36.360][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-04-15 20:34:36.364][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:36.366][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-04-15 20:34:36.368][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:36.369][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:36.371][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:36.372][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:36.373][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:36.374][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-04-15 20:34:36.375][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-04-15 20:34:36.377][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:36.378][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:36.380][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-04-15 20:34:36.381][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:36.382][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-04-15 20:34:36.382][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-04-15 20:34:36.382][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-04-15 20:34:36.382][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-04-15 20:34:36.382][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-04-15 20:34:36.382][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-04-15 20:34:36.382][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-04-15 20:34:36.382][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-04-15 20:34:36.382][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-04-15 20:34:36.382][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-04-15 20:34:36.382][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-04-15 20:34:36.383][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:36.384][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-04-15 20:34:36.384][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-04-15 20:34:36.384][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-04-15 20:34:36.385][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-04-15 20:34:36.386][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:36.387][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:36.388][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:36.389][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:36.390][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:36.391][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:36.392][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-04-15 20:34:36.392][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-04-15 20:34:36.393][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:36.395][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:36.396][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:36.398][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-04-15 20:34:36.398][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-04-15 20:34:36.400][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-04-15 20:34:36.402][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-04-15 20:34:36.405][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-04-15 20:34:36.407][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-04-15 20:34:36.410][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-04-15 20:34:36.413][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-04-15 20:34:36.419][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-04-15 20:34:36.421][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-04-15 20:34:36.423][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-04-15 20:34:36.425][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-04-15 20:34:36.437][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-04-15 20:34:36.440][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-04-15 20:34:36.443][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-04-15 20:34:36.446][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-04-15 20:34:36.450][biodb::testThat]
biodb.INFO [2024-04-15 20:34:36.452][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-04-15 20:34:36.455][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:36.457][biodb::testThat]
biodb.DEBUG[2024-04-15 20:34:36.462][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-04-15 20:34:36.469][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:36.472][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-04-15 20:34:36.474][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:36.477][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-04-15 20:34:36.486][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[2024-04-15 20:34:36.492][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:36.494][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:36.496][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-04-15 20:34:36.987][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-04-15 20:34:37.501][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:37.505][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2024-04-15 20:34:37.512][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2024-04-15 20:34:37.527][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-04-15 20:34:37.530][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-04-15 20:34:37.532][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-04-15 20:34:37.534][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-04-15 20:34:37.536][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:37.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:37.539][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.542][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-04-15 20:34:37.549][biodb::testContext]
biodb.INFO [2024-04-15 20:34:37.550][biodb::testContext] ********************************************************************************
biodb.INFO [2024-04-15 20:34:37.551][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-04-15 20:34:37.552][biodb::testContext] ********************************************************************************
biodb.INFO [2024-04-15 20:34:37.553][biodb::testContext]
biodb.INFO [2024-04-15 20:34:37.557][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.10.0.
biodb.DEBUG[2024-04-15 20:34:37.560][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.18-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-04-15 20:34:37.567][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-04-15 20:34:37.569][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-04-15 20:34:37.571][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-04-15 20:34:37.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.575][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-04-15 20:34:37.576][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-04-15 20:34:37.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.580][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-04-15 20:34:37.581][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-04-15 20:34:37.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.588][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-04-15 20:34:37.590][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-04-15 20:34:37.591][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-04-15 20:34:37.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.595][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-04-15 20:34:37.597][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-04-15 20:34:37.599][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-04-15 20:34:37.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.603][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[2024-04-15 20:34:37.605][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-04-15 20:34:37.606][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-04-15 20:34:37.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.611][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-04-15 20:34:37.612][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-04-15 20:34:37.613][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-04-15 20:34:37.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.616][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-04-15 20:34:37.618][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-04-15 20:34:37.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.623][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-04-15 20:34:37.624][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-04-15 20:34:37.625][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-04-15 20:34:37.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.629][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[2024-04-15 20:34:37.630][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-04-15 20:34:37.631][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-04-15 20:34:37.633][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-04-15 20:34:37.634][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-04-15 20:34:37.635][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-04-15 20:34:37.637][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-04-15 20:34:37.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.644][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-04-15 20:34:37.645][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-04-15 20:34:37.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.649][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[2024-04-15 20:34:37.650][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-04-15 20:34:37.652][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-04-15 20:34:37.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.656][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-04-15 20:34:37.657][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-04-15 20:34:37.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.662][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-04-15 20:34:37.664][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-04-15 20:34:37.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.670][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-04-15 20:34:37.672][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-04-15 20:34:37.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.679][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-04-15 20:34:37.681][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-04-15 20:34:37.698][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-04-15 20:34:37.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.704][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-04-15 20:34:37.706][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-04-15 20:34:37.708][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-04-15 20:34:37.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.714][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-04-15 20:34:37.716][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:37.718][self$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[2024-04-15 20:34:37.720][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.721][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:37.722][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.723][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:37.725][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:37.726][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:34:37.727][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-04-15 20:34:37.728][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:37.729][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.730][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-04-15 20:34:37.731][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:37.732][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.734][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.736][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-04-15 20:34:37.736][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-04-15 20:34:37.736][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-04-15 20:34:37.736][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-04-15 20:34:37.736][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-04-15 20:34:37.737][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:34:37.739][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:37.741][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:37.742][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:37.744][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:37.746][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:37.747][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:37.749][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.751][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:37.752][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:37.754][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:37.756][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.758][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-04-15 20:34:37.761][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:37.763][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-04-15 20:34:37.765][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.766][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:37.767][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.768][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:37.769][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:37.770][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:34:37.771][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-04-15 20:34:37.772][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:37.773][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.775][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-04-15 20:34:37.776][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:37.777][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.778][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.779][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-04-15 20:34:37.779][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-04-15 20:34:37.779][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-04-15 20:34:37.779][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-04-15 20:34:37.779][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-04-15 20:34:37.780][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:34:37.782][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:37.783][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:37.784][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:37.785][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:37.787][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:37.789][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:37.791][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.792][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:37.793][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:37.795][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:37.797][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.799][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-04-15 20:34:37.802][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.803][self$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[2024-04-15 20:34:37.805][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.807][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:37.808][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.810][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:37.812][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:37.814][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:34:37.815][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-04-15 20:34:37.817][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:37.819][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:37.821][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-04-15 20:34:37.823][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:37.824][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.826][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.827][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.828][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:34:37.830][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:37.831][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:37.832][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:37.833][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:37.835][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:37.836][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:37.838][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.840][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:37.841][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:37.843][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:37.845][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.847][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-04-15 20:34:37.849][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.850][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-04-15 20:34:37.851][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.852][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:37.853][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.854][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:37.855][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:37.856][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-04-15 20:34:37.857][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-04-15 20:34:37.858][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:37.860][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:37.861][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-04-15 20:34:37.862][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:37.863][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.865][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:37.866][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.867][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-04-15 20:34:37.869][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:37.870][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:37.872][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:37.874][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:37.876][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:37.877][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:37.879][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.881][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:37.882][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:37.884][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:37.886][self$setPropertyValue]
biodb.DEBUG[2024-04-15 20:34:37.888][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-04-15 20:34:37.890][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.907][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[2024-04-15 20:34:37.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.922][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.DEBUG[2024-04-15 20:34:37.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:37.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:37.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:37.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:37.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:37.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.004][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-04-15 20:34:38.006][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-04-15 20:34:38.008][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-04-15 20:34:38.010][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-04-15 20:34:38.013][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-04-15 20:34:38.015][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-04-15 20:34:38.018][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-04-15 20:34:38.020][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-04-15 20:34:38.021][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-04-15 20:34:38.022][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-04-15 20:34:38.024][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-04-15 20:34:38.025][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-04-15 20:34:38.027][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-04-15 20:34:38.028][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-04-15 20:34:38.029][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-04-15 20:34:38.031][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-04-15 20:34:38.033][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-04-15 20:34:38.035][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-04-15 20:34:38.037][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-04-15 20:34:38.040][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-04-15 20:34:38.042][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-04-15 20:34:38.044][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-04-15 20:34:38.046][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-04-15 20:34:38.049][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-04-15 20:34:38.051][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-04-15 20:34:38.053][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-04-15 20:34:38.056][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-04-15 20:34:38.058][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-04-15 20:34:38.060][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-04-15 20:34:38.062][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-04-15 20:34:38.065][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-04-15 20:34:38.067][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-04-15 20:34:38.069][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-04-15 20:34:38.071][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-04-15 20:34:38.073][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-04-15 20:34:38.076][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-04-15 20:34:38.077][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-04-15 20:34:38.079][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-04-15 20:34:38.081][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-04-15 20:34:38.083][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-04-15 20:34:38.085][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-04-15 20:34:38.087][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-04-15 20:34:38.090][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-04-15 20:34:38.092][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-04-15 20:34:38.095][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-04-15 20:34:38.097][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-04-15 20:34:38.100][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-04-15 20:34:38.102][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-04-15 20:34:38.105][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-04-15 20:34:38.107][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-04-15 20:34:38.109][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-04-15 20:34:38.111][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-04-15 20:34:38.112][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-04-15 20:34:38.114][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-04-15 20:34:38.115][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-04-15 20:34:38.118][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-04-15 20:34:38.120][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-04-15 20:34:38.122][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-04-15 20:34:38.125][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-04-15 20:34:38.127][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-04-15 20:34:38.130][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-04-15 20:34:38.132][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-04-15 20:34:38.135][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-04-15 20:34:38.137][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-04-15 20:34:38.140][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-04-15 20:34:38.142][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-04-15 20:34:38.144][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-04-15 20:34:38.146][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-04-15 20:34:38.149][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-04-15 20:34:38.151][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-04-15 20:34:38.154][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-04-15 20:34:38.157][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-04-15 20:34:38.159][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-04-15 20:34:38.162][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-04-15 20:34:38.164][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-04-15 20:34:38.167][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-04-15 20:34:38.169][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-04-15 20:34:38.172][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-04-15 20:34:38.174][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-04-15 20:34:38.176][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-04-15 20:34:38.177][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-04-15 20:34:38.179][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-04-15 20:34:38.181][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-04-15 20:34:38.183][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-04-15 20:34:38.185][initialize] This is biodb version 1.10.0.
biodb.DEBUG[2024-04-15 20:34:38.186][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-04-15 20:34:38.188][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.191][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.221][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[2024-04-15 20:34:38.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.293][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[2024-04-15 20:34:38.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.320][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[2024-04-15 20:34:38.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-04-15 20:34:38.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.350][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.18-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-04-15 20:34:38.352][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-04-15 20:34:38.355][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:38.357][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-04-15 20:34:38.358][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:38.360][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-04-15 20:34:38.362][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:38.363][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-04-15 20:34:38.365][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:38.366][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-04-15 20:34:38.368][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-04-15 20:34:38.370][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-04-15 20:34:38.371][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:38.373][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-04-15 20:34:38.374][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-04-15 20:34:38.376][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-04-15 20:34:38.376][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-04-15 20:34:38.376][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-04-15 20:34:38.376][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-04-15 20:34:38.376][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-04-15 20:34:38.376][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-04-15 20:34:38.376][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-04-15 20:34:38.376][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-04-15 20:34:38.376][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-04-15 20:34:38.376][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-04-15 20:34:38.376][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-04-15 20:34:38.377][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-04-15 20:34:38.378][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-04-15 20:34:38.378][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-04-15 20:34:38.378][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-04-15 20:34:38.380][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-04-15 20:34:38.381][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:38.383][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:38.384][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-04-15 20:34:38.385][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-04-15 20:34:38.387][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-04-15 20:34:38.388][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-04-15 20:34:38.390][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-04-15 20:34:38.390][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-04-15 20:34:38.392][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-04-15 20:34:38.393][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-04-15 20:34:38.395][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-04-15 20:34:38.396][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-04-15 20:34:38.396][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-04-15 20:34:38.407][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-04-15 20:34:38.410][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-04-15 20:34:38.412][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-04-15 20:34:38.415][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-04-15 20:34:38.418][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-04-15 20:34:38.420][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-04-15 20:34:38.426][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-04-15 20:34:38.428][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-04-15 20:34:38.430][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-04-15 20:34:38.433][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-04-15 20:34:38.435][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-04-15 20:34:38.437][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-04-15 20:34:38.439][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-04-15 20:34:38.441][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-04-15 20:34:38.443][biodb::testThat]
biodb.INFO [2024-04-15 20:34:38.445][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-04-15 20:34:38.446][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-04-15 20:34:38.448][biodb::testThat]
biodb.DEBUG[2024-04-15 20:34:38.452][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-04-15 20:34:38.458][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:38.460][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-04-15 20:34:38.463][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:38.465][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-04-15 20:34:38.471][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-04-15 20:34:38.476][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-04-15 20:34:38.479][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-04-15 20:34:38.481][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-04-15 20:34:38.483][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-04-15 20:34:38.490][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-04-15 20:34:38.492][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-04-15 20:34:38.495][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-04-15 20:34:38.497][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-04-15 20:34:38.499][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-04-15 20:34:38.501][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-04-15 20:34:38.503][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-04-15 20:34:38.504][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-04-15 20:34:38.506][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-04-15 20:34:38.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:38.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:38.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:38.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:38.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:38.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:38.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-04-15 20:34:38.527][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2024-04-15 20:34:38.531][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-04-15 20:34:38.533][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-04-15 20:34:38.535][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2024-04-15 20:34:39.023][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2024-04-15 20:34:40.356][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-04-15 20:34:40.360][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2024-04-15 20:34:40.367][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2024-04-15 20:34:40.377][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2024-04-15 20:34:40.381][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-04-15 20:34:40.385][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-04-15 20:34:40.387][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-04-15 20:34:40.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-04-15 20:34:40.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:40.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:40.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:40.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:40.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:40.408][FUN] Functions in observer BiodbConfig: [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[2024-04-15 20:34:40.416][ef$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:40.418][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:40.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.422][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:40.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:40.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.446][ef$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:40.448][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:40.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.453][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.458][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-04-15 20:34:40.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-04-15 20:34:40.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.467][ef$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:40.469][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:40.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.473][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.476][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-04-15 20:34:40.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-04-15 20:34:40.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.483][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-04-15 20:34:40.485][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-04-15 20:34:40.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.489][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.492][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-04-15 20:34:40.494][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-04-15 20:34:40.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.498][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.501][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:40.503][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:40.505][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.507][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.510][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:40.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-04-15 20:34:40.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.520][ef$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:40.522][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:40.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.527][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.530][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-04-15 20:34:40.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-04-15 20:34:40.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.538][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:40.541][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:40.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.544][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:40.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-04-15 20:34:40.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.556][ef$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:40.558][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:40.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.563][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-04-15 20:34:40.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-04-15 20:34:40.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.576][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:40.578][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:40.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.582][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.585][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-04-15 20:34:40.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-04-15 20:34:40.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.594][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:40.597][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:40.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.601][ef$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.604][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-04-15 20:34:40.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-04-15 20:34:40.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:40.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:40.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:40.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:40.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:40.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:40.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-04-15 20:34:40.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-04-15 20:34:40.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:40.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:40.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:40.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:40.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:40.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:40.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:40.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:40.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:40.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:40.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-04-15 20:34:40.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-04-15 20:34:40.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-04-15 20:34:40.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-04-15 20:34:40.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-04-15 20:34:40.695][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-04-15 20:34:40.705][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-04-15 20:34:40.708][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-04-15 20:34:40.711][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-04-15 20:34:40.714][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-04-15 20:34:40.716][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-04-15 20:34:40.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-04-15 20:34:40.721][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-04-15 20:34:40.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-04-15 20:34:40.725][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-04-15 20:34:40.727][FUN] Functions in observer 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 365 ]
> 
> proc.time()
   user  system elapsed 
 22.436   1.206  44.881

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.9910.0652.920
ChebiEntry0.1870.0050.193