Multiple platform build/check report for BioC 3.19 - CHECK results for biodbChebi on nebbiolo1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 22.04.3 LTS)	x86_64	4.4.0 (2024-04-24) -- "Puppy Cup"	4758
palomino3	Windows Server 2022 Datacenter	x64	4.4.0 (2024-04-24 ucrt) -- "Puppy Cup"	4492
merida1	macOS 12.7.4 Monterey	x86_64	4.4.0 (2024-04-24) -- "Puppy Cup"	4464
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.0 (2024-04-24) -- "Puppy Cup"	4464
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*

CHECK results for biodbChebi on nebbiolo1

To the developers/maintainers of the biodbChebi package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results

Summary

Package: biodbChebi

Version: 1.10.0

Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings biodbChebi_1.10.0.tar.gz

StartedAt: 2024-06-16 21:02:45 -0400 (Sun, 16 Jun 2024)

EndedAt: 2024-06-16 21:03:56 -0400 (Sun, 16 Jun 2024)

EllapsedTime: 71.1 seconds

RetCode: 0

Status: OK

CheckDir: biodbChebi.Rcheck

Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings biodbChebi_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/biodbChebi.Rcheck’
* using R version 4.4.0 (2024-04-24)
* using platform: x86_64-pc-linux-gnu
* 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 ‘1.10.0’
* 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 code 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 ... 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-3.19-bioc/R/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.19-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 4.4.0 (2024-04-24) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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 [2024-06-16 21:03:30.470][biodb::testContext]
biodb.INFO [2024-06-16 21:03:30.474][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-16 21:03:30.476][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-06-16 21:03:30.478][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-16 21:03:30.479][biodb::testContext]
biodb.INFO [2024-06-16 21:03:30.492][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-16 21:03:30.495][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-06-16 21:03:30.509][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-16 21:03:30.512][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-16 21:03:30.514][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-16 21:03:30.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.520][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-16 21:03:30.565][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-16 21:03:30.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.571][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[2024-06-16 21:03:30.572][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-16 21:03:30.573][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-16 21:03:30.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.577][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-16 21:03:30.578][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-16 21:03:30.580][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-16 21:03:30.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.584][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-16 21:03:30.585][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-16 21:03:30.586][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-16 21:03:30.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.590][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-16 21:03:30.591][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-16 21:03:30.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.594][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[2024-06-16 21:03:30.595][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-16 21:03:30.596][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-16 21:03:30.598][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-16 21:03:30.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.602][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-16 21:03:30.603][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-16 21:03:30.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.607][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-16 21:03:30.608][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-16 21:03:30.609][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-16 21:03:30.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.613][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-16 21:03:30.614][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-16 21:03:30.615][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-16 21:03:30.616][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-16 21:03:30.617][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-16 21:03:30.618][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-16 21:03:30.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.621][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[2024-06-16 21:03:30.622][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-16 21:03:30.623][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-16 21:03:30.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.627][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-16 21:03:30.628][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-16 21:03:30.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.632][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-16 21:03:30.633][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-16 21:03:30.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.637][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-16 21:03:30.638][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-16 21:03:30.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.641][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.DEBUG[2024-06-16 21:03:30.642][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-16 21:03:30.643][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-16 21:03:30.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.647][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-16 21:03:30.648][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-16 21:03:30.653][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-16 21:03:30.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.657][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-16 21:03:30.658][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-16 21:03:30.659][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-16 21:03:30.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.667][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-16 21:03:30.707][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:30.772][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-16 21:03:30.773][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.775][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:30.776][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.777][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:30.779][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:30.780][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:30.782][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-16 21:03:30.783][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:30.784][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.786][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-16 21:03:30.788][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:30.789][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.790][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.792][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-16 21:03:30.792][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-16 21:03:30.792][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-16 21:03:30.792][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-16 21:03:30.792][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-16 21:03:30.793][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:30.795][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:30.796][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:30.797][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:30.798][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:30.800][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:30.801][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:30.803][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.804][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:30.805][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:30.807][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:30.808][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.810][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-16 21:03:30.812][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:30.813][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-16 21:03:30.814][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.815][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:30.816][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.817][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:30.818][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:30.820][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:30.821][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-16 21:03:30.822][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:30.823][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.824][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-16 21:03:30.825][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:30.826][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.827][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.828][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-16 21:03:30.828][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-16 21:03:30.828][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-16 21:03:30.828][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-16 21:03:30.828][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-16 21:03:30.829][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:30.830][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:30.831][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:30.832][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:30.833][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:30.834][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:30.835][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:30.836][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.837][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:30.838][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:30.839][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:30.840][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.841][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-16 21:03:30.843][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.844][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-16 21:03:30.845][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.846][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:30.847][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.848][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:30.849][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:30.850][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:30.851][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-16 21:03:30.852][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:30.853][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:30.854][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-16 21:03:30.855][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:30.856][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.857][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.858][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.859][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:30.860][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:30.860][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:30.861][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:30.862][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:30.863][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:30.864][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:30.865][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.866][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:30.867][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:30.868][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:30.869][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.870][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-16 21:03:30.872][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.873][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-16 21:03:30.874][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.875][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:30.876][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.877][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:30.878][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:30.879][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:30.880][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-16 21:03:30.881][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:30.882][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:30.883][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-16 21:03:30.884][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:30.885][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.886][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:30.887][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.888][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:30.889][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:30.890][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:30.891][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:30.891][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:30.892][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:30.893][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:30.894][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.895][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:30.896][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:30.897][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:30.898][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:30.902][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-16 21:03:30.903][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.929][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[2024-06-16 21:03:30.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.933][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[2024-06-16 21:03:30.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.958][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[2024-06-16 21:03:30.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.971][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[2024-06-16 21:03:30.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:30.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:30.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:30.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:30.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:30.976][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-16 21:03:30.981][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-16 21:03:30.982][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-16 21:03:30.984][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-16 21:03:30.985][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-16 21:03:30.986][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-16 21:03:30.987][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-16 21:03:30.989][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-16 21:03:30.990][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-16 21:03:30.991][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-16 21:03:30.993][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-16 21:03:30.994][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-16 21:03:30.995][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-16 21:03:30.996][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-16 21:03:30.998][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-16 21:03:30.999][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-16 21:03:31.000][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-16 21:03:31.002][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-16 21:03:31.003][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-16 21:03:31.004][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-16 21:03:31.006][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-16 21:03:31.007][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-16 21:03:31.008][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-16 21:03:31.010][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-16 21:03:31.011][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-16 21:03:31.012][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-16 21:03:31.014][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-16 21:03:31.015][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-16 21:03:31.017][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-16 21:03:31.018][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-16 21:03:31.019][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-16 21:03:31.021][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-16 21:03:31.022][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-16 21:03:31.024][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-16 21:03:31.025][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-16 21:03:31.031][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-16 21:03:31.032][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-16 21:03:31.034][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-16 21:03:31.035][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-16 21:03:31.036][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-16 21:03:31.038][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-16 21:03:31.039][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-16 21:03:31.040][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-16 21:03:31.041][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-16 21:03:31.043][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-16 21:03:31.044][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-16 21:03:31.045][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-16 21:03:31.047][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-16 21:03:31.048][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-16 21:03:31.049][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-16 21:03:31.050][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-16 21:03:31.052][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-16 21:03:31.053][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-16 21:03:31.054][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-16 21:03:31.056][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-16 21:03:31.057][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-16 21:03:31.058][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-16 21:03:31.060][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-16 21:03:31.061][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-16 21:03:31.063][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-16 21:03:31.064][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-16 21:03:31.065][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-16 21:03:31.066][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-16 21:03:31.068][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-16 21:03:31.069][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-16 21:03:31.070][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-16 21:03:31.072][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-16 21:03:31.073][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-16 21:03:31.074][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-16 21:03:31.076][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-16 21:03:31.077][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-16 21:03:31.078][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-16 21:03:31.080][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-16 21:03:31.081][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-16 21:03:31.082][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-16 21:03:31.084][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-16 21:03:31.085][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-16 21:03:31.086][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-16 21:03:31.088][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-16 21:03:31.089][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-16 21:03:31.090][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-16 21:03:31.092][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-16 21:03:31.093][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-16 21:03:31.099][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-16 21:03:31.101][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-16 21:03:31.104][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-16 21:03:31.105][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.107][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:31.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.118][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[2024-06-16 21:03:31.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:31.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.130][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[2024-06-16 21:03:31.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.136][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[2024-06-16 21:03:31.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:31.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:31.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.155][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.DEBUG[2024-06-16 21:03:31.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:31.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:31.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:31.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:31.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:31.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:31.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:31.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:31.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.212][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[2024-06-16 21:03:31.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:31.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:31.220][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-06-16 21:03:31.229][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-06-16 21:03:31.232][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:31.233][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-16 21:03:31.234][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:31.235][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:31.236][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:31.237][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:31.238][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:31.239][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-06-16 21:03:31.240][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-16 21:03:31.241][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:31.242][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:31.243][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-06-16 21:03:31.244][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:31.245][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-06-16 21:03:31.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-06-16 21:03:31.245][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-06-16 21:03:31.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-06-16 21:03:31.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-06-16 21:03:31.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-06-16 21:03:31.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-06-16 21:03:31.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-06-16 21:03:31.245][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-06-16 21:03:31.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-06-16 21:03:31.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-06-16 21:03:31.246][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:31.247][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-16 21:03:31.247][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-16 21:03:31.247][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-16 21:03:31.248][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-16 21:03:31.249][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:31.250][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:31.251][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:31.252][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:31.253][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:31.254][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:31.255][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-16 21:03:31.255][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-06-16 21:03:31.256][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:31.256][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:31.257][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:31.258][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-06-16 21:03:31.258][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-06-16 21:03:31.265][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-16 21:03:31.267][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-16 21:03:31.269][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-06-16 21:03:31.270][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-16 21:03:31.272][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-16 21:03:31.274][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-16 21:03:31.306][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-06-16 21:03:31.307][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-06-16 21:03:31.312][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-06-16 21:03:31.317][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-06-16 21:03:31.322][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-16 21:03:31.323][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-16 21:03:31.325][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-06-16 21:03:31.326][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-06-16 21:03:31.336][biodb::testThat]
biodb.INFO [2024-06-16 21:03:31.338][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-06-16 21:03:31.339][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:31.340][biodb::testThat]
biodb.TRACE[2024-06-16 21:03:31.344][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-06-16 21:03:31.346][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:31.350][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:31.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:31.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:31.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:31.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:31.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:31.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:31.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:31.390][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.391][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.393][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.412][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:31.413][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:31.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.415][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.441][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:31.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:31.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.446][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:31.447][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:31.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.448][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.450][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:31.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:31.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.453][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:31.454][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:31.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.456][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:31.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:31.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.461][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:31.462][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:31.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.464][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:31.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:31.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.469][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:31.470][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:31.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.472][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.473][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:31.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:31.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.477][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:31.478][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.480][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.481][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:31.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.485][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.486][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.488][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.493][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:31.494][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:31.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.496][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.497][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:31.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:31.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.501][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:31.502][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:31.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.504][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.505][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:31.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:31.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.509][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:31.510][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:31.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.512][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.513][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:31.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:31.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:31.598][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-06-16 21:03:31.600][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:31.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:31.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:31.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:31.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:31.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:31.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:31.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:31.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.645][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-16 21:03:31.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-16 21:03:31.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.649][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-16 21:03:31.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-16 21:03:31.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.653][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-16 21:03:31.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-16 21:03:31.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.657][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-16 21:03:31.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-16 21:03:31.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.759][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.760][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.762][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:31.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:31.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.820][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.821][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.823][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:31.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.835][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:31.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:31.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:31.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:31.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.842][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:31.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:31.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.846][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:31.847][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:31.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.849][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.850][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:31.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:31.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.860][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:31.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:31.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.863][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:31.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:31.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.867][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:31.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:31.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.871][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:31.872][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:31.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.874][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.874][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:31.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:31.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.896][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.897][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.898][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:31.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.920][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.921][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.923][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:31.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.934][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:31.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:31.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.938][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:31.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:31.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.942][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:31.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:31.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.945][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:31.946][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:31.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.948][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.949][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:31.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:31.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.959][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-16 21:03:31.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:31.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.963][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-16 21:03:31.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:31.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.967][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-16 21:03:31.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:31.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.970][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-16 21:03:31.971][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:31.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.973][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.974][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-16 21:03:31.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:31.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.984][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:31.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:31.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.988][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:31.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:31.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.992][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:31.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:31.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.996][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:31.997][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:31.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:31.998][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:31.999][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:32.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:32.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.010][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:32.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:32.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.014][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:32.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:32.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.022][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:32.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:32.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.025][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:32.026][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:32.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.028][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.029][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:32.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:32.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.051][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.052][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.054][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.055][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:32.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:32.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.070][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:32.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:32.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.074][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:32.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:32.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.078][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:32.079][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:32.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.081][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:32.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:32.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.093][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:32.094][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:32.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.096][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.100][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:32.101][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:32.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.103][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.106][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:32.107][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:32.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.109][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.113][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:32.114][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:32.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.116][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.120][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.121][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.123][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.127][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:32.128][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:32.129][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.130][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.134][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.135][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.137][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.141][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:32.142][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:32.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.144][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.148][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-16 21:03:32.149][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:32.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.151][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.155][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:32.156][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:32.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.157][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.161][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:32.162][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:32.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.164][ef$get] fields variable is a list.
biodb.INFO [2024-06-16 21:03:32.171][biodb::testThat]
biodb.INFO [2024-06-16 21:03:32.172][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-06-16 21:03:32.173][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:32.174][biodb::testThat]
biodb.DEBUG[2024-06-16 21:03:32.186][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-06-16 21:03:32.194][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:32.199][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-06-16 21:03:32.200][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:32.201][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-06-16 21:03:32.203][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:32.225][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:32.226][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:32.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:32.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:32.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:32.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:32.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:32.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:32.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:32.244][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:32.245][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:32.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.247][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:32.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:32.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.268][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:32.269][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:32.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.271][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.273][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:32.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:32.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.276][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:32.277][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:32.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.279][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.280][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:32.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:32.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.284][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:32.285][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:32.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.287][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:32.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:32.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.292][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.293][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.295][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.296][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.300][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:32.301][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:32.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.303][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.304][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:32.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:32.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.308][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:32.309][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.311][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.312][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:32.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.316][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:32.317][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:32.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.319][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:32.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:32.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.324][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:32.325][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:32.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.326][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.328][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:32.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:32.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.332][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:32.332][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:32.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.334][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.336][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:32.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:32.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.339][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:32.340][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:32.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.342][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.343][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:32.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:32.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:32.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:32.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:32.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:32.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:32.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:32.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:32.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:32.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:32.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:32.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:32.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:32.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:32.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:32.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:32.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:32.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:32.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:32.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:32.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:32.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:32.385][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-06-16 21:03:32.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-06-16 21:03:32.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-06-16 21:03:32.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-06-16 21:03:32.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-06-16 21:03:32.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-06-16 21:03:32.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-06-16 21:03:32.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-16 21:03:32.404][biodb::testThat]
biodb.INFO [2024-06-16 21:03:32.405][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-06-16 21:03:32.406][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:32.407][biodb::testThat]
biodb.TRACE[2024-06-16 21:03:32.409][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:32.410][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:32.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.412][ef$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:32.413][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-06-16 21:03:32.441][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:32.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:32.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.445][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:32.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:32.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.449][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:32.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:32.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:32.456][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-06-16 21:03:32.460][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-06-16 21:03:32.480][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:32.495][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-06-16 21:03:32.496][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:32.498][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-06-16 21:03:32.519][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[2024-06-16 21:03:32.522][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:32.523][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-16 21:03:32.525][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:32.526][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-16 21:03:32.528][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-06-16 21:03:32.538][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:32.539][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:32.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.541][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.542][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.543][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.545][ef$get] fields variable is a list.
biodb.INFO [2024-06-16 21:03:32.548][biodb::testThat]
biodb.INFO [2024-06-16 21:03:32.549][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-06-16 21:03:32.550][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:32.551][biodb::testThat]
biodb.TRACE[2024-06-16 21:03:32.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:32.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:32.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.577][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:32.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:32.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.581][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:32.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:32.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:32.641][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[2024-06-16 21:03:32.644][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:32.646][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-16 21:03:32.647][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:32.648][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-06-16 21:03:32.661][biodb::testThat]
biodb.INFO [2024-06-16 21:03:32.662][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-06-16 21:03:32.663][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:32.664][biodb::testThat]
biodb.TRACE[2024-06-16 21:03:32.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:32.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:32.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.685][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:32.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:32.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.689][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.693][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.704][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-16 21:03:32.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-16 21:03:32.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.707][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-16 21:03:32.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-16 21:03:32.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.711][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-16 21:03:32.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-16 21:03:32.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.715][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-16 21:03:32.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-16 21:03:32.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:32.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:32.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:32.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:32.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.742][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:32.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:32.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.757][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-16 21:03:32.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-16 21:03:32.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.760][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-16 21:03:32.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-16 21:03:32.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.764][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-16 21:03:32.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-16 21:03:32.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:32.768][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-16 21:03:32.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-16 21:03:32.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:32.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-16 21:03:32.776][biodb::testThat]
biodb.INFO [2024-06-16 21:03:32.777][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-06-16 21:03:32.778][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:32.779][biodb::testThat]
biodb.INFO [2024-06-16 21:03:32.786][biodb::testThat]
biodb.INFO [2024-06-16 21:03:32.787][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-06-16 21:03:32.788][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:32.788][biodb::testThat]
biodb.INFO [2024-06-16 21:03:32.795][biodb::testThat]
biodb.INFO [2024-06-16 21:03:32.796][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-06-16 21:03:32.797][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:32.798][biodb::testThat]
biodb.DEBUG[2024-06-16 21:03:32.801][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-06-16 21:03:33.462][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-06-16 21:03:34.639][biodb::testThat]
biodb.INFO [2024-06-16 21:03:34.640][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-06-16 21:03:34.641][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:34.642][biodb::testThat]
biodb.DEBUG[2024-06-16 21:03:35.080][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[2024-06-16 21:03:35.529][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:35.532][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:35.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.537][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.539][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:35.542][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:35.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.547][ef$get] fields variable is a list.
biodb.INFO [2024-06-16 21:03:35.551][biodb::testThat]
biodb.INFO [2024-06-16 21:03:35.554][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2024-06-16 21:03:35.556][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:35.558][biodb::testThat]
biodb.TRACE[2024-06-16 21:03:35.579][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:35.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:35.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.586][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:35.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:35.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.591][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:35.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:35.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:35.698][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[2024-06-16 21:03:35.702][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:35.704][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-16 21:03:35.706][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:35.707][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-16 21:03:35.770][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[2024-06-16 21:03:35.774][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:35.775][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-16 21:03:35.777][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:35.778][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-06-16 21:03:35.792][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-16 21:03:35.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-16 21:03:35.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:35.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:35.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:35.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:35.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:35.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:35.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:35.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:35.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:35.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:35.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:35.828][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[2024-06-16 21:03:35.831][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:35.833][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-16 21:03:35.834][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:35.836][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-16 21:03:35.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:35.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:35.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:35.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:35.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:35.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:35.848][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[2024-06-16 21:03:35.849][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-06-16 21:03:35.905][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:35.907][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-06-16 21:03:35.908][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:35.910][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2024-06-16 21:03:35.911][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:35.913][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:35.914][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:35.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:35.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:35.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:35.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:35.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:35.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:35.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:35.927][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:35.929][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:35.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.931][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:35.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:35.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.936][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:35.937][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:35.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.939][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.940][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:35.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:35.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.945][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:35.946][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:35.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.948][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.950][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:35.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:35.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.954][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:35.955][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:35.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.957][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:35.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:35.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.963][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:35.964][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:35.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.966][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.967][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:35.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:35.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.972][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:35.973][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:35.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.975][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.976][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:35.977][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:35.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.979][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.980][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:35.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:35.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.984][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:35.985][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:35.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.987][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:35.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:35.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.992][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:35.993][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:35.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.995][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:35.996][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:35.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:35.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:35.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.000][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:36.001][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:36.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.003][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.004][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:36.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:36.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.008][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:36.009][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:36.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.011][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.012][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:36.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:36.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.085][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-06-16 21:03:36.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.109][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[2024-06-16 21:03:36.112][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:36.114][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-16 21:03:36.115][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:36.117][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-16 21:03:36.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:36.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:36.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:36.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:36.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:36.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:36.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:36.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:36.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:36.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:36.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:36.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:36.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:36.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:36.167][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-06-16 21:03:36.168][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:36.170][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-06-16 21:03:36.171][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:36.173][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2024-06-16 21:03:36.174][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:36.175][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:36.176][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:36.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:36.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:36.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:36.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:36.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:36.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:36.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:36.190][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.191][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.193][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.198][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:36.199][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:36.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.201][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.202][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:36.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:36.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.206][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:36.207][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:36.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.209][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.211][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:36.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:36.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.215][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:36.216][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:36.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.218][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:36.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:36.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.223][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.224][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.226][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.231][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:36.232][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:36.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.234][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.239][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:36.241][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.242][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.243][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:36.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.247][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.248][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.250][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.255][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:36.256][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:36.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.258][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.259][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:36.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:36.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.263][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:36.264][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:36.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.266][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.267][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:36.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:36.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.270][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:36.271][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:36.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.273][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.274][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:36.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:36.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.315][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-06-16 21:03:36.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.344][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[2024-06-16 21:03:36.347][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:36.348][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-16 21:03:36.350][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:36.351][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-16 21:03:36.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:36.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:36.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:36.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:36.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:36.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:36.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:36.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:36.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:36.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:36.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:36.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:36.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:36.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:36.385][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-06-16 21:03:36.386][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:36.388][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-06-16 21:03:36.389][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:36.390][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2024-06-16 21:03:36.392][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:36.393][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:36.394][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:36.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:36.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:36.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:36.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:36.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:36.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:36.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:36.406][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.407][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.413][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.419][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:36.420][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:36.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.421][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.423][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:36.424][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:36.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.425][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.427][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:36.428][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:36.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.430][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.431][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.432][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.433][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.435][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:36.436][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:36.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.437][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.438][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:36.439][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.441][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.442][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.443][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.445][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.446][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:36.447][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:36.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.449][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:36.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:36.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.454][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:36.455][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:36.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.457][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.458][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:36.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:36.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.462][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:36.463][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:36.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.464][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.502][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-06-16 21:03:36.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:36.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:36.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:36.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:36.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:36.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:36.530][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[2024-06-16 21:03:36.531][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-06-16 21:03:36.532][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:36.534][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-06-16 21:03:36.535][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:36.537][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2024-06-16 21:03:36.538][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:36.539][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:36.540][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:36.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:36.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:36.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:36.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:36.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:36.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:36.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:36.552][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.553][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.555][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.560][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:36.561][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:36.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.563][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.564][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:36.565][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:36.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.567][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.568][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:36.569][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:36.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.571][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.572][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.573][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.575][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.576][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:36.577][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:36.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.579][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.585][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:36.586][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.588][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.589][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.590][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.592][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.593][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:36.594][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:36.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.596][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.597][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:36.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:36.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.601][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:36.602][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:36.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.604][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.605][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:36.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:36.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.609][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:36.610][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:36.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.612][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.650][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-06-16 21:03:36.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.671][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:36.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:36.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:36.677][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:36.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:36.679][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:36.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:36.681][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-06-16 21:03:36.682][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:36.683][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-06-16 21:03:36.685][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:36.686][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2024-06-16 21:03:36.687][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:36.688][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:36.690][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:36.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:36.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:36.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:36.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:36.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:36.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:36.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:36.702][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.703][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.705][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.710][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:36.711][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:36.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.713][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.714][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:36.715][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:36.716][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.717][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.718][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:36.720][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:36.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.721][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.723][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.724][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.725][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.727][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:36.728][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:36.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.730][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.731][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:36.732][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.734][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.735][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.736][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.738][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.739][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:36.740][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:36.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.741][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.743][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:36.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:36.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.747][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:36.748][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:36.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.750][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.751][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:36.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:36.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.760][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:36.761][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:36.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.763][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.803][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-06-16 21:03:36.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:36.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:36.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:36.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:36.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:36.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:36.831][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[2024-06-16 21:03:36.832][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-06-16 21:03:36.833][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:36.834][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-06-16 21:03:36.835][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:36.837][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2024-06-16 21:03:36.838][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:36.839][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:36.840][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:36.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:36.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:36.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:36.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:36.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:36.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:36.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:36.853][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.854][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.855][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.860][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:36.861][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:36.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.863][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.864][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:36.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:36.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.868][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:36.869][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:36.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.871][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.873][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:36.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:36.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.877][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:36.878][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:36.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.879][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:36.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:36.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.884][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.885][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.887][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:36.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.892][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:36.893][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:36.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.895][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.896][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:36.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:36.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.900][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:36.901][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.903][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.904][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:36.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.908][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.909][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.911][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:36.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.916][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:36.917][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:36.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.918][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.920][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:36.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:36.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.924][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:36.930][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:36.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.932][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.933][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:36.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:36.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.937][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:36.938][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:36.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.940][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.941][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:36.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:36.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:36.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:36.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:36.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.982][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-06-16 21:03:36.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:36.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:36.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:36.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:36.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:36.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:36.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:37.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:37.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:37.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:37.003][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[2024-06-16 21:03:37.004][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-06-16 21:03:37.005][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:37.006][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-06-16 21:03:37.008][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:37.009][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2024-06-16 21:03:37.010][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:37.011][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:37.012][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:37.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:37.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:37.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:37.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:37.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:37.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:37.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:37.025][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.026][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.028][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.032][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:37.033][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:37.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.035][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.036][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:37.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:37.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.040][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:37.041][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:37.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.043][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.044][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:37.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:37.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.048][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:37.049][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:37.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.051][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.052][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:37.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:37.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.056][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.057][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.059][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.064][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.065][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.066][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.068][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.072][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:37.073][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.074][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.076][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:37.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.080][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.080][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.082][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.087][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:37.088][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:37.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.090][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:37.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:37.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.095][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:37.101][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:37.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.103][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.104][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:37.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:37.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.108][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:37.109][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:37.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.111][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.112][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:37.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:37.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:37.154][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-06-16 21:03:37.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:37.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:37.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:37.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:37.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:37.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:37.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:37.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:37.176][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-06-16 21:03:37.176][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:37.178][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-06-16 21:03:37.179][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:37.181][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2024-06-16 21:03:37.182][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:37.183][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:37.184][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:37.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:37.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:37.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:37.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:37.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:37.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:37.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:37.196][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.197][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.199][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.204][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:37.205][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:37.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.206][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.208][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:37.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:37.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.211][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:37.212][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:37.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.214][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.215][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:37.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:37.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.219][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:37.220][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:37.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.222][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.223][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:37.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:37.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.227][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.228][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.229][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.231][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.234][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.235][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.237][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.238][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:37.239][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.241][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.242][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:37.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.246][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.247][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.249][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.254][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:37.255][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:37.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.256][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:37.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:37.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.262][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:37.263][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:37.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.264][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.270][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:37.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:37.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.274][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:37.275][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:37.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.277][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.278][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:37.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:37.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:37.319][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-06-16 21:03:37.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:37.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:37.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:37.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:37.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:37.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:37.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:37.348][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[2024-06-16 21:03:37.349][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-06-16 21:03:37.350][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:37.352][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-06-16 21:03:37.354][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:37.356][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2024-06-16 21:03:37.357][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:37.359][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:37.360][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:37.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:37.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:37.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:37.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:37.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:37.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:37.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:37.375][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.376][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.378][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.384][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:37.385][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:37.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.387][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.388][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:37.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:37.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.392][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:37.393][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:37.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.395][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:37.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:37.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.400][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:37.402][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:37.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.403][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:37.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:37.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.409][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.410][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.412][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.413][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.418][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.419][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.421][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.422][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:37.423][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.425][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.426][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:37.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.431][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.432][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.434][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.439][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:37.440][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:37.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.442][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.444][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:37.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:37.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.448][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:37.449][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:37.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.451][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.453][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:37.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:37.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.478][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:37.480][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:37.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.483][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.485][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:37.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:37.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:37.553][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-06-16 21:03:37.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:37.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:37.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:37.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:37.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:37.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:37.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:37.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:37.576][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-06-16 21:03:37.577][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:37.579][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-06-16 21:03:37.580][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:37.581][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2024-06-16 21:03:37.582][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:37.583][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:37.584][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:37.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:37.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:37.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:37.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:37.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:37.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:37.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:37.597][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.598][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.599][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.604][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:37.605][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:37.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.607][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.608][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:37.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:37.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.612][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:37.613][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:37.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.615][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.616][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:37.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:37.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.620][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:37.621][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:37.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.622][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:37.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:37.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.627][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.628][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.630][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.635][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.636][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.638][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.639][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:37.640][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.642][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.643][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:37.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.647][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.648][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.650][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.655][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:37.656][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:37.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.657][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.659][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:37.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:37.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.662][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:37.663][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:37.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.665][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.666][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:37.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:37.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.670][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:37.671][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:37.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.678][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.679][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:37.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:37.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:37.721][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-06-16 21:03:37.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:37.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:37.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:37.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:37.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:37.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:37.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:37.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:37.743][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-06-16 21:03:37.744][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:37.746][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-06-16 21:03:37.747][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:37.748][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2024-06-16 21:03:37.749][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:37.751][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:37.752][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:37.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:37.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:37.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:37.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:37.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:37.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:37.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:37.764][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.765][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.767][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.772][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:37.773][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:37.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.775][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.776][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:37.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:37.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.780][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:37.781][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:37.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.783][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.784][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:37.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:37.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.788][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:37.789][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:37.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.790][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.792][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:37.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:37.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.795][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.796][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.798][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.799][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.803][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.804][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.806][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.807][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:37.808][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.810][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.811][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:37.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.815][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.816][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.818][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.823][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:37.824][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:37.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.826][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.827][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:37.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:37.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.831][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:37.832][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:37.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.834][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.835][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:37.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:37.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.839][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:37.840][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:37.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.842][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.843][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:37.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:37.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:37.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:37.890][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-06-16 21:03:37.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:37.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:37.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:37.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:37.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:37.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:37.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:37.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:37.913][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-06-16 21:03:37.914][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:37.916][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-06-16 21:03:37.917][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:37.918][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2024-06-16 21:03:37.919][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:37.921][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:37.922][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:37.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:37.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:37.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:37.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:37.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:37.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:37.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:37.935][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.936][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.938][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:37.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:37.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.943][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:37.944][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:37.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.946][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.947][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:37.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:37.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.951][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:37.952][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:37.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.954][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.955][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:37.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:37.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.959][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:37.960][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:37.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.961][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:37.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:37.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.966][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.967][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.969][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:37.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.974][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.975][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:37.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.978][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.979][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:37.981][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.984][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.986][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:37.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:37.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.992][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.993][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:37.996][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:37.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:37.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.004][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:38.005][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:38.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.008][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.010][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:38.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:38.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.016][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:38.018][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:38.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.020][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.022][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:38.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:38.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.028][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:38.030][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:38.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.032][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.034][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:38.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:38.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:38.092][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-06-16 21:03:38.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:38.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:38.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:38.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:38.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:38.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:38.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:38.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:38.114][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-06-16 21:03:38.114][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:38.116][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-06-16 21:03:38.117][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:38.119][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2024-06-16 21:03:38.120][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:38.121][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:38.122][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:38.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:38.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:38.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:38.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:38.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:38.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:38.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:38.134][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.135][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.136][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.141][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:38.142][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:38.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.144][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.145][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:38.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:38.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.149][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:38.150][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:38.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.152][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.153][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:38.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:38.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.157][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:38.158][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:38.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.159][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.160][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.161][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.163][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.164][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:38.165][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:38.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.167][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.168][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:38.169][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.171][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.172][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:38.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.176][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.177][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.179][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.183][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:38.184][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:38.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.186][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.187][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:38.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:38.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.191][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:38.192][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:38.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.194][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.195][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:38.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:38.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.199][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:38.200][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:38.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.202][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:38.246][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-06-16 21:03:38.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:38.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:38.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:38.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:38.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:38.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:38.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:38.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:38.267][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-06-16 21:03:38.268][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:38.270][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-06-16 21:03:38.271][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:38.272][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2024-06-16 21:03:38.273][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:38.275][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:38.276][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:38.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:38.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:38.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:38.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:38.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:38.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:38.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:38.288][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.289][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.291][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.296][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:38.297][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:38.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.298][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.300][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:38.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:38.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.303][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:38.304][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:38.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.306][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.307][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:38.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:38.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.311][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:38.312][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:38.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.314][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.315][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.316][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.318][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.319][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:38.320][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:38.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.322][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.323][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:38.324][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.326][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.327][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.328][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:38.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.332][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.333][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.335][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.340][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:38.341][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:38.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.342][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.344][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:38.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:38.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.347][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:38.348][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:38.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.350][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.351][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:38.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:38.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.355][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:38.356][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:38.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.358][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:38.426][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-06-16 21:03:38.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.432][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:38.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:38.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:38.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:38.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:38.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:38.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:38.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:38.458][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-06-16 21:03:38.460][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:38.462][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-06-16 21:03:38.464][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:38.466][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2024-06-16 21:03:38.468][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:38.470][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:38.471][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:38.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:38.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:38.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:38.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:38.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:38.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:38.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:38.490][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.492][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.495][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.503][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:38.504][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:38.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.507][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.509][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:38.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:38.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.515][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:38.517][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:38.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.519][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.521][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:38.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:38.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.525][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:38.526][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:38.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.528][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:38.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:38.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.533][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.534][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.537][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.543][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:38.544][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:38.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.546][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.547][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:38.548][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.550][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.551][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:38.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.555][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.556][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.558][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.563][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:38.564][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:38.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.565][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:38.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:38.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.570][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:38.571][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:38.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.573][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.574][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:38.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:38.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.578][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:38.579][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:38.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.581][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.582][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:38.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:38.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:38.628][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-06-16 21:03:38.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:38.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:38.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:38.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:38.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:38.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:38.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:38.649][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[2024-06-16 21:03:38.650][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-06-16 21:03:38.652][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:38.654][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-06-16 21:03:38.656][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:38.658][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2024-06-16 21:03:38.659][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:38.661][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:38.662][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:38.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:38.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:38.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:38.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:38.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:38.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:38.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:38.677][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.678][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.680][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.685][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:38.686][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:38.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.688][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.689][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:38.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:38.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.692][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:38.693][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:38.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.695][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.696][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:38.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:38.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.700][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:38.701][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:38.702][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.703][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:38.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:38.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.708][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.709][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.710][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.712][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.715][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:38.716][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:38.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.718][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.719][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:38.720][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.722][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.723][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:38.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.727][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.728][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.730][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.735][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:38.736][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:38.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.737][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:38.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:38.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.743][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:38.744][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:38.744][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.745][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.747][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:38.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:38.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.750][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:38.751][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:38.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.753][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.754][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:38.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:38.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:38.801][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-06-16 21:03:38.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:38.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:38.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:38.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:38.819][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:38.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:38.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:38.821][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[2024-06-16 21:03:38.822][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-06-16 21:03:38.823][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:38.825][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-06-16 21:03:38.826][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:38.827][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2024-06-16 21:03:38.828][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:38.830][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:38.831][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:38.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:38.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:38.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:38.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:38.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:38.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:38.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:38.843][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.844][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.846][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.851][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:38.852][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:38.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.853][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.855][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:38.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:38.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.858][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:38.859][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:38.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.861][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.862][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:38.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:38.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.866][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:38.867][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:38.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.869][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.870][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:38.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:38.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.874][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.875][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.876][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.878][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:38.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.881][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:38.882][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:38.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.884][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.885][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:38.886][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.888][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.889][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:38.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.893][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.894][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.896][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:38.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.901][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:38.902][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:38.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.903][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.905][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:38.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:38.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.908][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:38.909][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:38.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.911][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.912][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:38.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:38.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.916][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:38.917][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:38.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.919][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.920][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:38.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:38.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:38.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:38.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:38.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:38.961][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-06-16 21:03:38.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:38.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:38.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:38.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:38.978][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:38.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:38.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:38.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:38.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:38.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:38.986][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[2024-06-16 21:03:38.987][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-06-16 21:03:38.988][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:38.990][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-06-16 21:03:38.991][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:38.993][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2024-06-16 21:03:38.994][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:38.995][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:38.996][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:38.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:38.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:38.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:39.008][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.009][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.011][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.016][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:39.017][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:39.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.018][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.020][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:39.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:39.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.023][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:39.024][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:39.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.026][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.032][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:39.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:39.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.036][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:39.037][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:39.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.039][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:39.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:39.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.045][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.046][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.048][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.049][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.053][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:39.054][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:39.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.056][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.057][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:39.059][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.060][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.062][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:39.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.066][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.067][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.069][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.074][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:39.075][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:39.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.077][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.079][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:39.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:39.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.083][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:39.084][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:39.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.086][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.087][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:39.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:39.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.092][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:39.093][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:39.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.095][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.096][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:39.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:39.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.141][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-06-16 21:03:39.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:39.181][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-06-16 21:03:39.182][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:39.184][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-06-16 21:03:39.185][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:39.187][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2024-06-16 21:03:39.188][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:39.189][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:39.190][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:39.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:39.203][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.205][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.206][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.212][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:39.213][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:39.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.215][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.216][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:39.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:39.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.220][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:39.221][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:39.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.223][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.224][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:39.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:39.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.228][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:39.229][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:39.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.231][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:39.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:39.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.236][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.237][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.239][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.240][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.244][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:39.245][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:39.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.247][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.248][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:39.249][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.250][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.252][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:39.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.255][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.256][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.258][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.263][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:39.264][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:39.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.266][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.267][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:39.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:39.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.271][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:39.272][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:39.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.274][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.275][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:39.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:39.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.279][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:39.280][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:39.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.281][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.283][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:39.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:39.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.324][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-06-16 21:03:39.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:39.351][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-06-16 21:03:39.352][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:39.353][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-06-16 21:03:39.355][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:39.356][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2024-06-16 21:03:39.357][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:39.358][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:39.359][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:39.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.367][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:39.371][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.372][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.374][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.379][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:39.380][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:39.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.382][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.383][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:39.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:39.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.387][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:39.388][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:39.389][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.390][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.391][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:39.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:39.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.395][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:39.396][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:39.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.398][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.399][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:39.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:39.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.403][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.404][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.406][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.407][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.411][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:39.412][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:39.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.413][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.415][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:39.416][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.417][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.418][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:39.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.422][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.423][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.425][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.430][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:39.431][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:39.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.433][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.434][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:39.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:39.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.438][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:39.439][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:39.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.441][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.442][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:39.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:39.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.446][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:39.447][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:39.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.448][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.449][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:39.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:39.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.491][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-06-16 21:03:39.492][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:39.519][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-06-16 21:03:39.520][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:39.521][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-06-16 21:03:39.523][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:39.524][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2024-06-16 21:03:39.525][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:39.526][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:39.528][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:39.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:39.540][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.541][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.543][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.548][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:39.549][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:39.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.551][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.552][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:39.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:39.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.556][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:39.557][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:39.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.558][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.560][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:39.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:39.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.564][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:39.564][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:39.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.566][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:39.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:39.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.571][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.572][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.574][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.575][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:39.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.579][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:39.580][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:39.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.582][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.583][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:39.584][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.586][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.587][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:39.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.590][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.591][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.593][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:39.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.598][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:39.599][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:39.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.601][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.603][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:39.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:39.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.606][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:39.607][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:39.608][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.609][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.610][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:39.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:39.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.614][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:39.615][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:39.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.617][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.618][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:39.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:39.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:39.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:39.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:39.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.659][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-06-16 21:03:39.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.692][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[2024-06-16 21:03:39.695][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:39.697][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-16 21:03:39.698][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:39.699][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-16 21:03:39.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:39.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:39.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.759][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[2024-06-16 21:03:39.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:39.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:39.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.837][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.TRACE[2024-06-16 21:03:39.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.863][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[2024-06-16 21:03:39.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:39.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:39.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.925][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.TRACE[2024-06-16 21:03:39.926][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.945][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[2024-06-16 21:03:39.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:39.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:39.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:39.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:39.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:39.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:39.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:39.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:39.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:39.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:39.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:39.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:39.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.094][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[2024-06-16 21:03:40.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.115][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.TRACE[2024-06-16 21:03:40.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.136][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.TRACE[2024-06-16 21:03:40.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.209][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-16 21:03:40.212][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:40.213][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2024-06-16 21:03:40.214][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:40.216][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2024-06-16 21:03:40.219][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[2024-06-16 21:03:40.222][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:40.223][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2024-06-16 21:03:40.224][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:40.225][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2024-06-16 21:03:40.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:40.237][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-06-16 21:03:40.238][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:40.239][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-06-16 21:03:40.240][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:40.242][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2024-06-16 21:03:40.243][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:40.244][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:40.245][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:40.247][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.257][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.258][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.260][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.265][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:40.266][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:40.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.267][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.269][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:40.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:40.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.272][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:40.273][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:40.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.275][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.277][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:40.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:40.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.280][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:40.281][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:40.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.283][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.284][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:40.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:40.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.288][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:40.289][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:40.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.291][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:40.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:40.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.296][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:40.297][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:40.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.298][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.300][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:40.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:40.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.303][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:40.304][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.306][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.307][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:40.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.311][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.312][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.314][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.319][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:40.320][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:40.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.321][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.323][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:40.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:40.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.327][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:40.328][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:40.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.329][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.331][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:40.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:40.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.334][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:40.335][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:40.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.337][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.338][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:40.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:40.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:40.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:40.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:40.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:40.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:40.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:40.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.385][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-06-16 21:03:40.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.403][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.425][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:40.427][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-06-16 21:03:40.428][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:40.430][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-06-16 21:03:40.431][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:40.432][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2024-06-16 21:03:40.433][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:40.435][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:40.436][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:40.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.448][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.449][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.451][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.456][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:40.457][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:40.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.459][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.460][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:40.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:40.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.464][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:40.465][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:40.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.467][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.468][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:40.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:40.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.472][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:40.473][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:40.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.474][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:40.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:40.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.480][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:40.481][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:40.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.482][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:40.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:40.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.487][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:40.488][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:40.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.490][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.491][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:40.492][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.494][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.495][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:40.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:40.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.499][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.500][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.502][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.507][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:40.508][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:40.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.510][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.511][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:40.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:40.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.515][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:40.516][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:40.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.523][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.524][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:40.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:40.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.528][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:40.529][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:40.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.531][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.532][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:40.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:40.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:40.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:40.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:40.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:40.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:40.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:40.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:40.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:40.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.584][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-06-16 21:03:40.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.629][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[2024-06-16 21:03:40.634][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:40.636][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-16 21:03:40.638][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:40.639][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-16 21:03:40.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.829][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.TRACE[2024-06-16 21:03:40.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.849][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.937][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.979][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:40.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:40.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:40.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:40.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:40.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:40.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:40.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:40.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:40.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:40.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:40.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.118][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[2024-06-16 21:03:41.121][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:41.122][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-16 21:03:41.124][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:41.125][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-16 21:03:41.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.136][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.TRACE[2024-06-16 21:03:41.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.157][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.TRACE[2024-06-16 21:03:41.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.267][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.TRACE[2024-06-16 21:03:41.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.291][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[2024-06-16 21:03:41.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.304][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.336][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.TRACE[2024-06-16 21:03:41.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.403][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.TRACE[2024-06-16 21:03:41.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.422][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.465][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.551][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.580][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[2024-06-16 21:03:41.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.600][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.TRACE[2024-06-16 21:03:41.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.630][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-16 21:03:41.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-16 21:03:41.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-16 21:03:41.640][biodb::testThat]
biodb.INFO [2024-06-16 21:03:41.641][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-06-16 21:03:41.642][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:41.643][biodb::testThat]
biodb.TRACE[2024-06-16 21:03:41.646][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-16 21:03:41.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-16 21:03:41.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:41.679][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[2024-06-16 21:03:41.682][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:41.683][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-16 21:03:41.684][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:41.686][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-16 21:03:41.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.709][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[2024-06-16 21:03:41.712][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:41.714][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-16 21:03:41.715][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:41.716][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-16 21:03:41.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.727][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[2024-06-16 21:03:41.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.745][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:41.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:41.760][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-16 21:03:41.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.784][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:41.785][private$selectFields]
biodb.TRACE[2024-06-16 21:03:41.786][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:41.787][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:41.788][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:41.789][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.790][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.792][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.793][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.794][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.795][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.796][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:41.797][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:41.798][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.801][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.802][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:41.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.823][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-16 21:03:41.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.842][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:41.843][private$selectFields]
biodb.TRACE[2024-06-16 21:03:41.843][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:41.844][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:41.845][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:41.846][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.847][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.849][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.850][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.851][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.853][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.854][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:41.854][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:41.855][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.856][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.858][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.859][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:41.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.871][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-16 21:03:41.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:41.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:41.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:41.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:41.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:41.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:41.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:41.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.890][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:41.891][private$selectFields]
biodb.TRACE[2024-06-16 21:03:41.892][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:41.893][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:41.893][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:41.894][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.895][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.897][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.898][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.899][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.901][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.902][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:41.903][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:41.904][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.905][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.907][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.908][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:41.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:41.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.920][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-16 21:03:41.921][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-16 21:03:41.922][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-16 21:03:41.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:41.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:41.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:41.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:42.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:42.030][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[2024-06-16 21:03:42.034][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:42.035][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-16 21:03:42.037][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:42.039][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-16 21:03:42.042][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[2024-06-16 21:03:42.044][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:42.046][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-16 21:03:42.047][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:42.050][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-16 21:03:42.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.061][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[2024-06-16 21:03:42.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:42.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:42.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.104][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.TRACE[2024-06-16 21:03:42.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:42.148][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-16 21:03:42.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.188][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.189][private$selectFields]
biodb.TRACE[2024-06-16 21:03:42.190][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:42.191][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:42.192][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.193][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.194][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.195][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.196][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.197][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.199][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.200][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.201][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.202][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.203][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.205][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.206][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:42.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.220][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-16 21:03:42.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.280][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.281][private$selectFields]
biodb.TRACE[2024-06-16 21:03:42.282][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:42.283][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:42.284][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.285][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.286][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.288][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.289][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.290][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.291][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.292][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.293][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.304][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.305][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.307][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.308][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.309][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:42.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.323][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-16 21:03:42.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.343][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.344][private$selectFields]
biodb.TRACE[2024-06-16 21:03:42.345][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:42.346][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:42.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.347][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.348][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.350][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.351][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.352][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.353][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.354][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.355][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.356][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.357][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.358][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.360][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.361][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:42.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.373][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-16 21:03:42.374][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-16 21:03:42.375][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-16 21:03:42.383][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-16 21:03:42.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-16 21:03:42.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-16 21:03:42.390][biodb::testThat]
biodb.INFO [2024-06-16 21:03:42.391][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-06-16 21:03:42.392][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:42.393][biodb::testThat]
biodb.TRACE[2024-06-16 21:03:42.396][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-16 21:03:42.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-16 21:03:42.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:42.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.427][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[2024-06-16 21:03:42.430][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[2024-06-16 21:03:42.433][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:42.434][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-16 21:03:42.435][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:42.437][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-16 21:03:42.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:42.468][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[2024-06-16 21:03:42.471][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:42.472][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-16 21:03:42.473][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:42.475][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-16 21:03:42.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.494][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:42.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.507][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.TRACE[2024-06-16 21:03:42.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:42.519][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-16 21:03:42.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.538][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.539][private$selectFields]
biodb.TRACE[2024-06-16 21:03:42.540][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:42.541][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:42.542][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.545][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.546][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.547][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.549][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.550][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.551][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.552][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.553][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.555][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.556][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:42.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.569][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-16 21:03:42.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.587][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.588][private$selectFields]
biodb.TRACE[2024-06-16 21:03:42.589][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:42.590][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:42.591][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.592][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.593][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.595][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.595][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.596][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.598][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.599][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.600][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.601][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.602][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.604][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.605][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:42.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.625][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-16 21:03:42.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.646][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.647][private$selectFields]
biodb.TRACE[2024-06-16 21:03:42.648][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:42.649][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:42.650][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.651][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.652][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.654][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.655][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.656][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.658][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.659][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.660][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.661][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.662][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.664][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.665][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:42.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.678][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-16 21:03:42.679][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-16 21:03:42.680][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-16 21:03:42.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:42.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:42.718][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[2024-06-16 21:03:42.721][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:42.723][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-16 21:03:42.724][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:42.725][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-16 21:03:42.728][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[2024-06-16 21:03:42.731][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:42.732][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-16 21:03:42.734][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:42.735][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-16 21:03:42.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:42.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:42.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.788][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[2024-06-16 21:03:42.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:42.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:42.807][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-16 21:03:42.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.827][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.828][private$selectFields]
biodb.TRACE[2024-06-16 21:03:42.829][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:42.829][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:42.830][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.831][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.834][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.835][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.836][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.838][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.839][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.840][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.841][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.842][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.844][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.845][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:42.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.857][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-16 21:03:42.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.876][private$selectFields]
biodb.TRACE[2024-06-16 21:03:42.877][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:42.878][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:42.879][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.880][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.881][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.883][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.884][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.885][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.887][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.888][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.889][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.889][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.890][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.892][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.893][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:42.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.906][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-16 21:03:42.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:42.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:42.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:42.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:42.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:42.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:42.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:42.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.924][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.925][private$selectFields]
biodb.TRACE[2024-06-16 21:03:42.926][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:42.927][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:42.927][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.928][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.929][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.931][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.932][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.933][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.935][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.936][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.937][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:42.938][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.939][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.940][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.941][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.942][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:42.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:42.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.955][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-16 21:03:42.956][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-16 21:03:42.957][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-16 21:03:42.965][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-16 21:03:42.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-16 21:03:42.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-16 21:03:42.978][biodb::testThat]
biodb.INFO [2024-06-16 21:03:42.979][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-06-16 21:03:42.980][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:42.980][biodb::testThat]
biodb.TRACE[2024-06-16 21:03:42.983][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-16 21:03:42.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-16 21:03:42.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:42.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:42.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:42.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:43.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.015][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.DEBUG[2024-06-16 21:03:43.018][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[2024-06-16 21:03:43.021][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:43.023][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-16 21:03:43.024][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:43.025][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-16 21:03:43.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.037][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[2024-06-16 21:03:43.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:43.051][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[2024-06-16 21:03:43.054][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:43.056][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-16 21:03:43.057][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:43.058][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-16 21:03:43.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:43.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:43.107][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-16 21:03:43.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.126][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.127][private$selectFields]
biodb.TRACE[2024-06-16 21:03:43.128][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:43.129][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:43.130][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.131][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.132][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.134][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.135][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.136][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.138][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.139][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.140][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.142][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.144][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.145][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:43.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.166][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-16 21:03:43.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.184][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.185][private$selectFields]
biodb.TRACE[2024-06-16 21:03:43.186][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:43.187][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:43.188][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.189][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.193][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.194][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.196][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.197][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.198][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.199][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.200][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.201][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.202][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:43.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.216][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-16 21:03:43.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.234][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.235][private$selectFields]
biodb.TRACE[2024-06-16 21:03:43.236][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:43.237][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:43.238][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.239][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.240][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.242][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.243][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.244][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.245][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.246][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.247][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.248][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.249][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.251][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.252][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:43.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.266][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-16 21:03:43.267][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-16 21:03:43.267][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-16 21:03:43.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:43.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.311][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:43.314][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[2024-06-16 21:03:43.317][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:43.318][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-16 21:03:43.320][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:43.321][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-16 21:03:43.329][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[2024-06-16 21:03:43.333][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:43.334][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-16 21:03:43.336][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:43.337][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-16 21:03:43.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:43.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:43.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:43.404][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-16 21:03:43.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.423][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.424][private$selectFields]
biodb.TRACE[2024-06-16 21:03:43.425][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:43.426][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:43.427][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.427][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.429][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.430][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.431][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.432][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.434][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.435][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.436][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.437][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.438][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.440][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.441][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:43.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.453][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-16 21:03:43.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.472][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.473][private$selectFields]
biodb.TRACE[2024-06-16 21:03:43.474][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:43.474][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:43.475][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.476][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.477][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.479][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.480][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.481][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.483][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.484][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.485][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.486][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.487][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.489][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.489][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:43.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.508][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-16 21:03:43.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.526][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.527][private$selectFields]
biodb.TRACE[2024-06-16 21:03:43.528][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-16 21:03:43.529][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-16 21:03:43.530][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.531][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.532][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.534][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.535][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.536][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.538][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.538][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.539][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-16 21:03:43.540][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.541][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.543][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.544][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-16 21:03:43.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.557][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-16 21:03:43.558][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-16 21:03:43.559][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-16 21:03:43.576][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-16 21:03:43.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-16 21:03:43.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-16 21:03:43.582][biodb::testThat]
biodb.INFO [2024-06-16 21:03:43.583][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-06-16 21:03:43.584][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:43.585][biodb::testThat]
biodb.DEBUG[2024-06-16 21:03:43.587][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-06-16 21:03:43.588][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:43.590][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-06-16 21:03:43.591][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:43.592][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2024-06-16 21:03:43.593][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:43.595][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:43.596][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:43.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.608][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.609][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.611][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.616][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:43.617][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:43.618][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.619][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.620][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:43.621][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:43.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.623][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.624][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:43.625][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:43.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.627][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.628][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:43.629][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:43.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.631][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.632][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:43.633][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:43.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.635][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.636][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:43.637][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.639][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.640][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.641][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.643][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.644][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:43.645][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:43.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.647][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.648][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:43.649][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:43.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.651][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.652][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:43.653][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:43.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.655][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:43.700][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-06-16 21:03:43.701][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-06-16 21:03:43.708][biodb::testThat]
biodb.INFO [2024-06-16 21:03:43.709][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-06-16 21:03:43.710][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:43.711][biodb::testThat]
biodb.DEBUG[2024-06-16 21:03:43.719][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-06-16 21:03:43.720][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-06-16 21:03:43.721][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-06-16 21:03:43.723][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2024-06-16 21:03:43.724][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2024-06-16 21:03:43.726][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2024-06-16 21:03:43.728][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:43.729][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-06-16 21:03:43.730][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:43.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.743][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.744][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.746][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.751][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:43.752][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:43.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.754][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.755][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:43.756][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:43.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.758][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.759][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:43.760][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:43.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.762][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.763][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:43.764][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:43.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.766][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.767][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:43.768][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:43.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.770][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.771][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:43.772][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.774][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.775][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.776][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.777][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.779][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:43.780][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:43.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.781][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.783][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:43.784][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:43.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.785][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.787][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:43.788][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:43.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.789][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:43.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:43.828][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.829][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.831][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.842][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:43.843][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:43.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.845][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.847][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:43.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:43.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.851][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:43.852][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:43.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.853][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.855][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:43.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:43.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.859][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:43.860][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:43.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.862][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.863][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:43.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:43.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.867][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:43.868][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:43.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.870][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.871][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:43.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:43.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.875][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:43.876][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:43.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.878][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.879][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:43.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:43.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.883][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:43.884][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.885][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.887][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:43.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:43.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.890][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.891][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.893][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:43.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.898][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:43.899][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:43.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.901][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.902][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:43.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:43.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.906][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:43.907][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:43.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.909][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.910][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:43.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:43.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.914][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:43.915][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:43.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.917][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.918][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:43.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:43.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:43.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:43.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:43.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:43.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:43.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:43.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:43.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:43.957][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[2024-06-16 21:03:43.959][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.960][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.962][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:43.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:43.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.967][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:43.968][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:43.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.970][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.971][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:43.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:43.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.975][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:43.976][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:43.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.978][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.979][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:43.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:43.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.983][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:43.984][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:43.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.986][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:43.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:43.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.991][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:43.992][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:43.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.994][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:43.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:43.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:43.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:43.999][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:44.000][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:44.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.001][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.003][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:44.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:44.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.013][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:44.014][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:44.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.016][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.017][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:44.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:44.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.021][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:44.022][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:44.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.024][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:44.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:44.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.029][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:44.030][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:44.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.032][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.033][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:44.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:44.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.037][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:44.038][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:44.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.040][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.041][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:44.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:44.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.045][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:44.046][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:44.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.048][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.049][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:44.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:44.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:44.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:44.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:44.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:44.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:44.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:44.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:44.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:44.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:44.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:44.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:44.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:44.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:44.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:44.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:44.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:44.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:44.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:44.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:44.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:44.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:44.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:44.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:44.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:44.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:44.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:44.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:44.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:44.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:44.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:44.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:44.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:44.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:44.118][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-06-16 21:03:44.119][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-06-16 21:03:44.120][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-06-16 21:03:44.136][biodb::testThat]
biodb.INFO [2024-06-16 21:03:44.138][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-06-16 21:03:44.139][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:44.140][biodb::testThat]
biodb.INFO [2024-06-16 21:03:44.165][biodb::testThat]
biodb.INFO [2024-06-16 21:03:44.166][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-06-16 21:03:44.167][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:44.168][biodb::testThat]
biodb.INFO [2024-06-16 21:03:44.176][biodb::testThat]
biodb.INFO [2024-06-16 21:03:44.177][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-06-16 21:03:44.178][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:44.179][biodb::testThat]
biodb.DEBUG[2024-06-16 21:03:44.182][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[2024-06-16 21:03:44.202][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:44.204][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2024-06-16 21:03:44.206][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:44.208][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2024-06-16 21:03:44.219][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:44.220][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:44.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.223][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:44.224][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:44.225][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:44.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:44.227][ef$get] fields variable is a list.
biodb.INFO [2024-06-16 21:03:44.228][biodb::testThat]
biodb.INFO [2024-06-16 21:03:44.229][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2024-06-16 21:03:44.230][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:44.231][biodb::testThat]
biodb.ERROR[2024-06-16 21:03:44.245][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-06-16 21:03:44.263][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-06-16 21:03:44.276][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-16 21:03:44.277][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-06-16 21:03:44.278][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-06-16 21:03:44.279][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-16 21:03:44.280][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.282][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.284][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-16 21:03:44.295][biodb::testContext]
biodb.INFO [2024-06-16 21:03:44.296][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-16 21:03:44.296][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-06-16 21:03:44.297][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-16 21:03:44.298][biodb::testContext]
biodb.INFO [2024-06-16 21:03:44.300][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-16 21:03:44.302][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-06-16 21:03:44.306][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-16 21:03:44.307][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-16 21:03:44.308][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-16 21:03:44.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.312][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-16 21:03:44.313][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-16 21:03:44.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.316][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-16 21:03:44.317][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-16 21:03:44.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.321][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-16 21:03:44.322][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-16 21:03:44.323][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-16 21:03:44.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.326][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-16 21:03:44.327][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-16 21:03:44.328][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-16 21:03:44.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.332][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-16 21:03:44.333][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-16 21:03:44.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.335][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[2024-06-16 21:03:44.336][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-16 21:03:44.337][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-16 21:03:44.338][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-16 21:03:44.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.342][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-16 21:03:44.343][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-16 21:03:44.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.346][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-16 21:03:44.347][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-16 21:03:44.348][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-16 21:03:44.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.351][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-16 21:03:44.352][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-16 21:03:44.353][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-16 21:03:44.354][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-16 21:03:44.355][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-16 21:03:44.356][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-16 21:03:44.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.360][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-16 21:03:44.361][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-16 21:03:44.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.364][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-16 21:03:44.365][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-16 21:03:44.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.369][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-16 21:03:44.370][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-16 21:03:44.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.379][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-16 21:03:44.381][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-16 21:03:44.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.384][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-16 21:03:44.385][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-16 21:03:44.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.389][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-16 21:03:44.390][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-16 21:03:44.393][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-16 21:03:44.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.396][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-16 21:03:44.397][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-16 21:03:44.398][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-16 21:03:44.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.402][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-16 21:03:44.404][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.405][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-16 21:03:44.406][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.407][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:44.408][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.409][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.410][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.410][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.411][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-16 21:03:44.412][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:44.413][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.414][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-16 21:03:44.415][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:44.416][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.417][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.418][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-16 21:03:44.418][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-16 21:03:44.418][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-16 21:03:44.418][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-16 21:03:44.418][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-16 21:03:44.419][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:44.420][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:44.421][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:44.422][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:44.423][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:44.424][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:44.424][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.425][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.426][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:44.427][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:44.428][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.429][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.430][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-16 21:03:44.432][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.433][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-16 21:03:44.434][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.435][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:44.436][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.437][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.438][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.439][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.440][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-16 21:03:44.441][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:44.442][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.443][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-16 21:03:44.444][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:44.445][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.445][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.446][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-16 21:03:44.446][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-16 21:03:44.446][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-16 21:03:44.446][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-16 21:03:44.446][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-16 21:03:44.447][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:44.448][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:44.449][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:44.450][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:44.451][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:44.452][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:44.453][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.454][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.455][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:44.456][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:44.456][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.457][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.459][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-16 21:03:44.460][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.461][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-16 21:03:44.462][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.463][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:44.464][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.465][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.466][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.467][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.468][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-16 21:03:44.469][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:44.470][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.471][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-16 21:03:44.472][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:44.473][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.474][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.475][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.475][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:44.476][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:44.477][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:44.478][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:44.479][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:44.480][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:44.481][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.482][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.483][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:44.484][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:44.484][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.485][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.487][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-16 21:03:44.488][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.489][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-16 21:03:44.490][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.491][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:44.492][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.493][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.494][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.495][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.496][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-16 21:03:44.497][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:44.498][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.499][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-16 21:03:44.500][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:44.501][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.502][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.503][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.504][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:44.505][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:44.505][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:44.506][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:44.507][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:44.508][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:44.509][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.510][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.511][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:44.512][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:44.513][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.514][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:44.515][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-16 21:03:44.516][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.521][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[2024-06-16 21:03:44.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.525][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[2024-06-16 21:03:44.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.544][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.DEBUG[2024-06-16 21:03:44.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.553][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[2024-06-16 21:03:44.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.561][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[2024-06-16 21:03:44.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.570][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[2024-06-16 21:03:44.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.574][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[2024-06-16 21:03:44.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.578][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[2024-06-16 21:03:44.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.591][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[2024-06-16 21:03:44.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.596][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-16 21:03:44.598][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-16 21:03:44.599][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-16 21:03:44.600][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-16 21:03:44.602][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-16 21:03:44.603][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-16 21:03:44.604][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-16 21:03:44.606][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-16 21:03:44.607][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-16 21:03:44.608][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-16 21:03:44.610][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-16 21:03:44.611][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-16 21:03:44.612][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-16 21:03:44.614][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-16 21:03:44.615][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-16 21:03:44.616][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-16 21:03:44.617][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-16 21:03:44.619][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-16 21:03:44.620][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-16 21:03:44.621][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-16 21:03:44.623][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-16 21:03:44.624][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-16 21:03:44.625][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-16 21:03:44.627][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-16 21:03:44.628][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-16 21:03:44.629][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-16 21:03:44.630][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-16 21:03:44.632][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-16 21:03:44.633][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-16 21:03:44.634][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-16 21:03:44.636][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-16 21:03:44.637][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-16 21:03:44.638][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-16 21:03:44.640][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-16 21:03:44.641][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-16 21:03:44.642][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-16 21:03:44.644][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-16 21:03:44.645][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-16 21:03:44.646][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-16 21:03:44.648][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-16 21:03:44.649][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-16 21:03:44.650][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-16 21:03:44.651][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-16 21:03:44.653][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-16 21:03:44.654][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-16 21:03:44.655][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-16 21:03:44.657][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-16 21:03:44.658][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-16 21:03:44.659][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-16 21:03:44.661][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-16 21:03:44.662][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-16 21:03:44.663][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-16 21:03:44.665][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-16 21:03:44.666][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-16 21:03:44.667][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-16 21:03:44.669][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-16 21:03:44.670][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-16 21:03:44.671][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-16 21:03:44.673][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-16 21:03:44.674][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-16 21:03:44.675][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-16 21:03:44.677][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-16 21:03:44.678][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-16 21:03:44.679][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-16 21:03:44.681][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-16 21:03:44.682][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-16 21:03:44.683][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-16 21:03:44.685][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-16 21:03:44.686][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-16 21:03:44.687][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-16 21:03:44.688][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-16 21:03:44.690][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-16 21:03:44.691][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-16 21:03:44.692][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-16 21:03:44.699][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-16 21:03:44.701][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-16 21:03:44.703][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-16 21:03:44.704][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-16 21:03:44.705][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-16 21:03:44.707][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-16 21:03:44.708][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-16 21:03:44.710][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-16 21:03:44.711][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-16 21:03:44.712][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-16 21:03:44.714][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-16 21:03:44.715][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-16 21:03:44.716][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.717][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.766][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.DEBUG[2024-06-16 21:03:44.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.795][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[2024-06-16 21:03:44.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:44.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.819][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[2024-06-16 21:03:44.821][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-06-16 21:03:44.822][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-06-16 21:03:44.824][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.825][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.826][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.827][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:44.828][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.829][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.830][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.831][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-06-16 21:03:44.832][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-16 21:03:44.833][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:44.834][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.834][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-06-16 21:03:44.835][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:44.836][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-06-16 21:03:44.836][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-06-16 21:03:44.836][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-06-16 21:03:44.836][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-06-16 21:03:44.836][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-06-16 21:03:44.836][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-06-16 21:03:44.836][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-06-16 21:03:44.836][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-06-16 21:03:44.836][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-06-16 21:03:44.836][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-06-16 21:03:44.836][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-06-16 21:03:44.838][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:44.838][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-16 21:03:44.838][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-16 21:03:44.838][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-16 21:03:44.839][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-16 21:03:44.840][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:44.841][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:44.842][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:44.843][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:44.844][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:44.845][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:44.846][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-16 21:03:44.846][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-06-16 21:03:44.847][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:44.847][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:44.848][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:44.849][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-06-16 21:03:44.849][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-06-16 21:03:44.851][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-16 21:03:44.852][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-16 21:03:44.854][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-06-16 21:03:44.861][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-16 21:03:44.863][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-16 21:03:44.864][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-16 21:03:44.868][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-06-16 21:03:44.869][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-06-16 21:03:44.870][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-06-16 21:03:44.871][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-06-16 21:03:44.872][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-16 21:03:44.873][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-16 21:03:44.875][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-06-16 21:03:44.876][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-06-16 21:03:44.877][biodb::testThat]
biodb.INFO [2024-06-16 21:03:44.878][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2024-06-16 21:03:44.879][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:44.880][biodb::testThat]
biodb.DEBUG[2024-06-16 21:03:44.883][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-06-16 21:03:44.887][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:44.888][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-06-16 21:03:44.889][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:44.890][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-06-16 21:03:44.894][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[2024-06-16 21:03:44.897][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:44.898][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-06-16 21:03:44.899][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:44.901][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-06-16 21:03:44.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:44.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.913][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[2024-06-16 21:03:44.916][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:44.917][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-06-16 21:03:44.918][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:44.920][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-06-16 21:03:44.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:44.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.930][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[2024-06-16 21:03:44.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:44.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.960][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[2024-06-16 21:03:44.963][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:44.964][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-06-16 21:03:44.966][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:44.967][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-06-16 21:03:44.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:44.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.978][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[2024-06-16 21:03:44.980][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[2024-06-16 21:03:44.983][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:44.984][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-06-16 21:03:44.985][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:44.987][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-06-16 21:03:44.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:44.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:44.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:44.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:44.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:44.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:44.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:44.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:44.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.011][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[2024-06-16 21:03:45.014][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:45.016][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-06-16 21:03:45.017][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:45.018][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-06-16 21:03:45.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:45.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.037][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[2024-06-16 21:03:45.040][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:45.041][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-06-16 21:03:45.043][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:45.044][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-06-16 21:03:45.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:45.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.057][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[2024-06-16 21:03:45.060][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:45.062][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2024-06-16 21:03:45.063][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:45.065][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2024-06-16 21:03:45.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:45.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-16 21:03:45.082][biodb::testThat]
biodb.INFO [2024-06-16 21:03:45.083][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2024-06-16 21:03:45.084][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:45.085][biodb::testThat]
biodb.DEBUG[2024-06-16 21:03:45.088][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[2024-06-16 21:03:45.091][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:45.093][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2024-06-16 21:03:45.094][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:45.096][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2024-06-16 21:03:45.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:45.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.110][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[2024-06-16 21:03:45.114][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:45.115][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2024-06-16 21:03:45.116][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:45.118][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2024-06-16 21:03:45.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:45.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-16 21:03:45.133][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-16 21:03:45.134][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-06-16 21:03:45.135][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-06-16 21:03:45.136][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-16 21:03:45.137][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.138][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.140][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.141][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.INFO [2024-06-16 21:03:45.144][biodb::testContext]
biodb.INFO [2024-06-16 21:03:45.145][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-16 21:03:45.146][biodb::testContext] Test context - Test web services
biodb.INFO [2024-06-16 21:03:45.147][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-16 21:03:45.148][biodb::testContext]
biodb.INFO [2024-06-16 21:03:45.150][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-16 21:03:45.151][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-06-16 21:03:45.155][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-16 21:03:45.156][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-16 21:03:45.157][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-16 21:03:45.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.160][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-16 21:03:45.161][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-16 21:03:45.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.164][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[2024-06-16 21:03:45.165][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-16 21:03:45.166][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-16 21:03:45.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.169][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-16 21:03:45.170][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-16 21:03:45.171][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-16 21:03:45.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.175][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-16 21:03:45.176][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-16 21:03:45.177][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-16 21:03:45.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.180][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-16 21:03:45.181][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-16 21:03:45.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.185][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-16 21:03:45.185][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-16 21:03:45.187][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-16 21:03:45.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.190][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-16 21:03:45.191][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-16 21:03:45.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.194][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-16 21:03:45.195][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-16 21:03:45.196][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-16 21:03:45.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.200][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-16 21:03:45.201][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-16 21:03:45.201][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-16 21:03:45.202][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-16 21:03:45.209][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-16 21:03:45.210][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-16 21:03:45.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.214][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-16 21:03:45.215][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-16 21:03:45.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.219][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-16 21:03:45.220][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-16 21:03:45.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.223][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-16 21:03:45.224][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-16 21:03:45.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.228][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-16 21:03:45.229][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-16 21:03:45.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.232][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-16 21:03:45.233][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-16 21:03:45.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.237][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-16 21:03:45.238][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-16 21:03:45.243][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-16 21:03:45.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.245][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[2024-06-16 21:03:45.246][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-16 21:03:45.247][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-16 21:03:45.248][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-16 21:03:45.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.252][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-16 21:03:45.254][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.255][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-16 21:03:45.255][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.256][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:45.257][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.258][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.259][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.260][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.261][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-16 21:03:45.262][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:45.263][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.264][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-16 21:03:45.265][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:45.266][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.267][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.268][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-16 21:03:45.268][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-16 21:03:45.268][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-16 21:03:45.268][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-16 21:03:45.268][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-16 21:03:45.269][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:45.270][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:45.271][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:45.271][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:45.272][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:45.273][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:45.274][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.275][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.276][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:45.277][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:45.278][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.279][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.280][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-16 21:03:45.281][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.282][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-16 21:03:45.283][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.284][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:45.285][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.286][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.287][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.288][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.289][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-16 21:03:45.290][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:45.291][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.292][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-16 21:03:45.292][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:45.293][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.294][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.295][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-16 21:03:45.295][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-16 21:03:45.295][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-16 21:03:45.295][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-16 21:03:45.295][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-16 21:03:45.296][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:45.297][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:45.298][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:45.299][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:45.300][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:45.301][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:45.302][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.303][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.304][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:45.304][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:45.305][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.306][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.307][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-16 21:03:45.309][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.310][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-16 21:03:45.311][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.312][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:45.313][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.314][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.315][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.316][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.317][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-16 21:03:45.318][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:45.319][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.320][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-16 21:03:45.321][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:45.322][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.323][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.324][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.325][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:45.325][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:45.326][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:45.327][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:45.328][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:45.329][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:45.330][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.331][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.332][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:45.333][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:45.334][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.335][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.336][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-16 21:03:45.337][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.338][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-16 21:03:45.339][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.340][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:45.341][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.342][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.343][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.344][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.345][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-16 21:03:45.346][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:45.347][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.348][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-16 21:03:45.349][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:45.350][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.351][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.352][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.353][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:45.354][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:45.354][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:45.355][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:45.356][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:45.357][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:45.358][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.359][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.360][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:45.361][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:45.362][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.363][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:45.364][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-16 21:03:45.365][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.403][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[2024-06-16 21:03:45.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.416][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[2024-06-16 21:03:45.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.428][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[2024-06-16 21:03:45.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.446][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-16 21:03:45.447][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-16 21:03:45.449][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-16 21:03:45.450][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-16 21:03:45.451][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-16 21:03:45.453][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-16 21:03:45.454][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-16 21:03:45.455][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-16 21:03:45.457][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-16 21:03:45.458][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-16 21:03:45.459][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-16 21:03:45.460][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-16 21:03:45.462][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-16 21:03:45.463][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-16 21:03:45.464][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-16 21:03:45.466][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-16 21:03:45.467][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-16 21:03:45.468][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-16 21:03:45.470][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-16 21:03:45.471][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-16 21:03:45.472][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-16 21:03:45.474][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-16 21:03:45.475][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-16 21:03:45.476][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-16 21:03:45.478][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-16 21:03:45.479][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-16 21:03:45.480][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-16 21:03:45.482][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-16 21:03:45.483][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-16 21:03:45.484][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-16 21:03:45.486][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-16 21:03:45.487][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-16 21:03:45.489][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-16 21:03:45.490][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-16 21:03:45.491][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-16 21:03:45.493][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-16 21:03:45.494][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-16 21:03:45.495][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-16 21:03:45.497][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-16 21:03:45.498][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-16 21:03:45.499][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-16 21:03:45.500][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-16 21:03:45.502][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-16 21:03:45.503][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-16 21:03:45.504][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-16 21:03:45.506][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-16 21:03:45.507][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-16 21:03:45.508][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-16 21:03:45.510][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-16 21:03:45.511][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-16 21:03:45.512][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-16 21:03:45.513][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-16 21:03:45.515][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-16 21:03:45.516][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-16 21:03:45.517][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-16 21:03:45.519][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-16 21:03:45.520][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-16 21:03:45.521][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-16 21:03:45.528][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-16 21:03:45.530][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-16 21:03:45.531][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-16 21:03:45.532][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-16 21:03:45.534][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-16 21:03:45.535][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-16 21:03:45.536][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-16 21:03:45.538][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-16 21:03:45.539][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-16 21:03:45.540][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-16 21:03:45.542][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-16 21:03:45.543][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-16 21:03:45.544][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-16 21:03:45.546][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-16 21:03:45.547][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-16 21:03:45.548][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-16 21:03:45.550][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-16 21:03:45.551][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-16 21:03:45.552][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-16 21:03:45.553][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-16 21:03:45.555][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-16 21:03:45.556][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-16 21:03:45.557][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-16 21:03:45.559][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-16 21:03:45.560][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-16 21:03:45.561][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-16 21:03:45.563][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-16 21:03:45.564][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-16 21:03:45.565][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.566][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.579][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[2024-06-16 21:03:45.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.585][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[2024-06-16 21:03:45.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.591][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[2024-06-16 21:03:45.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.614][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[2024-06-16 21:03:45.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.649][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[2024-06-16 21:03:45.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.655][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[2024-06-16 21:03:45.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.661][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[2024-06-16 21:03:45.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.668][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-06-16 21:03:45.669][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-06-16 21:03:45.671][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.672][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.673][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.674][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:45.867][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.869][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.870][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.871][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-06-16 21:03:45.872][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-16 21:03:45.873][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:45.874][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.874][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-06-16 21:03:45.875][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:45.876][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-06-16 21:03:45.876][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-06-16 21:03:45.876][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-06-16 21:03:45.876][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-06-16 21:03:45.876][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-06-16 21:03:45.876][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-06-16 21:03:45.876][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-06-16 21:03:45.876][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-06-16 21:03:45.876][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-06-16 21:03:45.876][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-06-16 21:03:45.876][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-06-16 21:03:45.877][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:45.878][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-16 21:03:45.878][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-16 21:03:45.878][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-16 21:03:45.879][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-16 21:03:45.880][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:45.881][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:45.882][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:45.883][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:45.883][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:45.884][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:45.885][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-16 21:03:45.885][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-06-16 21:03:45.886][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:45.887][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:45.888][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:45.889][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-06-16 21:03:45.889][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-06-16 21:03:45.890][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-16 21:03:45.892][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-16 21:03:45.893][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-06-16 21:03:45.895][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-16 21:03:45.896][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-16 21:03:45.898][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-16 21:03:45.901][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-06-16 21:03:45.902][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-06-16 21:03:45.903][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-06-16 21:03:45.904][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-06-16 21:03:45.905][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-16 21:03:45.906][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-16 21:03:45.907][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-06-16 21:03:45.908][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-06-16 21:03:45.909][biodb::testThat]
biodb.INFO [2024-06-16 21:03:45.910][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-06-16 21:03:45.911][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:45.912][biodb::testThat]
biodb.DEBUG[2024-06-16 21:03:45.915][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-06-16 21:03:45.918][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:45.919][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-06-16 21:03:45.920][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:45.922][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-06-16 21:03:45.925][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[2024-06-16 21:03:45.928][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:45.929][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-06-16 21:03:45.930][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:45.931][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2024-06-16 21:03:45.938][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-16 21:03:45.939][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-06-16 21:03:45.940][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-06-16 21:03:45.941][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-16 21:03:45.942][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:45.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:45.943][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:45.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:45.945][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.946][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.INFO [2024-06-16 21:03:45.949][biodb::testContext]
biodb.INFO [2024-06-16 21:03:45.950][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-16 21:03:45.951][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-06-16 21:03:45.951][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-16 21:03:45.952][biodb::testContext]
biodb.INFO [2024-06-16 21:03:45.954][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-16 21:03:45.956][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-06-16 21:03:45.959][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-16 21:03:45.960][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-16 21:03:45.961][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-16 21:03:45.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.964][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-16 21:03:45.965][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-16 21:03:45.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.969][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-16 21:03:45.970][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-16 21:03:45.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.973][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-16 21:03:45.974][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-16 21:03:45.975][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-16 21:03:45.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.978][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-16 21:03:45.979][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-16 21:03:45.980][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-16 21:03:45.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.983][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-16 21:03:45.984][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-16 21:03:45.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.986][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[2024-06-16 21:03:45.987][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-16 21:03:45.988][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-16 21:03:45.989][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-16 21:03:45.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.992][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-16 21:03:45.993][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-16 21:03:45.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:45.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:45.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:45.997][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-16 21:03:45.998][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-16 21:03:45.999][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-16 21:03:46.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.002][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-16 21:03:46.003][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-16 21:03:46.004][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-16 21:03:46.005][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-16 21:03:46.006][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-16 21:03:46.007][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-16 21:03:46.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.010][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-16 21:03:46.011][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-16 21:03:46.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.015][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-16 21:03:46.016][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-16 21:03:46.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.019][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-16 21:03:46.020][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-16 21:03:46.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.023][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-16 21:03:46.024][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-16 21:03:46.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.028][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-16 21:03:46.029][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-16 21:03:46.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.037][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-16 21:03:46.037][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-16 21:03:46.040][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-16 21:03:46.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.044][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-16 21:03:46.045][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-16 21:03:46.046][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-16 21:03:46.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.049][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-16 21:03:46.051][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.052][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-16 21:03:46.052][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.053][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:46.054][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.055][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.056][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.057][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.058][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-16 21:03:46.059][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:46.060][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.061][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-16 21:03:46.062][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:46.062][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.063][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.064][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-16 21:03:46.064][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-16 21:03:46.064][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-16 21:03:46.064][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-16 21:03:46.064][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-16 21:03:46.065][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:46.066][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:46.067][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:46.068][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:46.069][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:46.070][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:46.070][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.071][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.072][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:46.073][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:46.074][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.075][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.076][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-16 21:03:46.077][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.078][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-16 21:03:46.079][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.080][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:46.081][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.082][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.083][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.084][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.085][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-16 21:03:46.085][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:46.086][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.087][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-16 21:03:46.088][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:46.089][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.090][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.091][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-16 21:03:46.091][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-16 21:03:46.091][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-16 21:03:46.091][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-16 21:03:46.091][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-16 21:03:46.092][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:46.093][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:46.094][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:46.094][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:46.095][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:46.096][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:46.097][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.098][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.099][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:46.099][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:46.100][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.101][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.102][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-16 21:03:46.104][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.105][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-16 21:03:46.106][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.107][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:46.108][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.108][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.109][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.110][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.111][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-16 21:03:46.112][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:46.113][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.114][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-16 21:03:46.115][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:46.116][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.116][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.117][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.118][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:46.119][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:46.120][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:46.121][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:46.122][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:46.123][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:46.123][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.124][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.125][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:46.126][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:46.127][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.128][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.129][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-16 21:03:46.130][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.131][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-16 21:03:46.132][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.133][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:46.134][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.135][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.136][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.137][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.138][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-16 21:03:46.138][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:46.139][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.140][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-16 21:03:46.141][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:46.142][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.143][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.144][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.145][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-16 21:03:46.146][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:46.146][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:46.147][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:46.148][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:46.149][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:46.150][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.151][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.152][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:46.152][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:46.153][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.154][self$setPropertyValue]
biodb.DEBUG[2024-06-16 21:03:46.156][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-16 21:03:46.156][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.157][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[2024-06-16 21:03:46.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.170][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[2024-06-16 21:03:46.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.194][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[2024-06-16 21:03:46.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.202][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[2024-06-16 21:03:46.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.219][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[2024-06-16 21:03:46.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.232][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-16 21:03:46.233][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-16 21:03:46.234][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-16 21:03:46.236][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-16 21:03:46.237][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-16 21:03:46.238][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-16 21:03:46.239][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-16 21:03:46.241][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-16 21:03:46.242][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-16 21:03:46.243][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-16 21:03:46.245][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-16 21:03:46.246][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-16 21:03:46.247][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-16 21:03:46.249][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-16 21:03:46.250][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-16 21:03:46.251][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-16 21:03:46.252][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-16 21:03:46.254][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-16 21:03:46.255][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-16 21:03:46.256][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-16 21:03:46.258][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-16 21:03:46.259][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-16 21:03:46.260][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-16 21:03:46.261][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-16 21:03:46.263][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-16 21:03:46.264][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-16 21:03:46.265][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-16 21:03:46.266][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-16 21:03:46.268][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-16 21:03:46.269][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-16 21:03:46.270][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-16 21:03:46.272][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-16 21:03:46.273][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-16 21:03:46.274][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-16 21:03:46.275][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-16 21:03:46.276][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-16 21:03:46.278][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-16 21:03:46.279][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-16 21:03:46.280][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-16 21:03:46.281][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-16 21:03:46.283][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-16 21:03:46.284][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-16 21:03:46.285][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-16 21:03:46.287][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-16 21:03:46.288][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-16 21:03:46.289][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-16 21:03:46.290][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-16 21:03:46.292][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-16 21:03:46.293][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-16 21:03:46.294][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-16 21:03:46.296][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-16 21:03:46.297][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-16 21:03:46.298][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-16 21:03:46.299][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-16 21:03:46.301][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-16 21:03:46.302][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-16 21:03:46.303][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-16 21:03:46.304][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-16 21:03:46.306][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-16 21:03:46.307][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-16 21:03:46.308][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-16 21:03:46.309][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-16 21:03:46.311][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-16 21:03:46.312][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-16 21:03:46.313][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-16 21:03:46.315][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-16 21:03:46.316][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-16 21:03:46.317][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-16 21:03:46.318][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-16 21:03:46.320][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-16 21:03:46.321][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-16 21:03:46.322][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-16 21:03:46.323][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-16 21:03:46.325][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-16 21:03:46.326][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-16 21:03:46.327][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-16 21:03:46.329][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-16 21:03:46.330][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-16 21:03:46.331][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-16 21:03:46.332][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-16 21:03:46.334][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-16 21:03:46.335][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-16 21:03:46.336][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-16 21:03:46.337][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-16 21:03:46.339][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-16 21:03:46.340][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-16 21:03:46.341][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.342][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.365][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[2024-06-16 21:03:46.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.387][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[2024-06-16 21:03:46.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.393][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[2024-06-16 21:03:46.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-16 21:03:46.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-16 21:03:46.445][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-06-16 21:03:46.446][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-06-16 21:03:46.448][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.449][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.450][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.451][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-16 21:03:46.452][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.453][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.453][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.454][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-06-16 21:03:46.455][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-16 21:03:46.456][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-16 21:03:46.457][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.458][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-06-16 21:03:46.459][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-16 21:03:46.460][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-06-16 21:03:46.460][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-06-16 21:03:46.460][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-06-16 21:03:46.460][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-06-16 21:03:46.460][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-06-16 21:03:46.460][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-06-16 21:03:46.460][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-06-16 21:03:46.460][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-06-16 21:03:46.460][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-06-16 21:03:46.460][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-06-16 21:03:46.460][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-06-16 21:03:46.461][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-16 21:03:46.462][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-16 21:03:46.462][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-16 21:03:46.462][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-16 21:03:46.463][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-16 21:03:46.464][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:46.465][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:46.466][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-16 21:03:46.467][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-16 21:03:46.468][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-16 21:03:46.469][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-16 21:03:46.469][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-16 21:03:46.469][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-06-16 21:03:46.471][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-16 21:03:46.471][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-16 21:03:46.472][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-16 21:03:46.473][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-06-16 21:03:46.473][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-06-16 21:03:46.474][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-16 21:03:46.476][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-16 21:03:46.478][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-06-16 21:03:46.479][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-16 21:03:46.480][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-16 21:03:46.482][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-16 21:03:46.485][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-06-16 21:03:46.486][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-06-16 21:03:46.487][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-06-16 21:03:46.488][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-06-16 21:03:46.490][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-16 21:03:46.491][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-16 21:03:46.492][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-06-16 21:03:46.493][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-06-16 21:03:46.494][biodb::testThat]
biodb.INFO [2024-06-16 21:03:46.495][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-06-16 21:03:46.496][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-16 21:03:46.497][biodb::testThat]
biodb.DEBUG[2024-06-16 21:03:46.500][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-06-16 21:03:46.508][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:46.509][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-06-16 21:03:46.510][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:46.512][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-06-16 21:03:46.515][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[2024-06-16 21:03:46.518][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-16 21:03:46.519][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-06-16 21:03:46.520][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:46.521][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-06-16 21:03:46.536][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-06-16 21:03:46.537][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-16 21:03:46.538][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-06-16 21:03:46.539][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-16 21:03:46.542][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2024-06-16 21:03:46.543][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-16 21:03:46.544][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-16 21:03:46.545][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-16 21:03:46.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-16 21:03:46.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-16 21:03:46.566][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:46.567][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:46.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.569][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:46.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:46.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.575][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:46.576][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:46.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.578][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.580][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-16 21:03:46.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-16 21:03:46.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.583][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:46.584][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:46.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.586][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.587][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-16 21:03:46.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-16 21:03:46.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.591][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-16 21:03:46.592][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-16 21:03:46.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.594][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.595][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-16 21:03:46.596][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-16 21:03:46.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.598][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:46.600][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:46.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.602][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.603][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:46.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-16 21:03:46.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.607][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:46.608][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:46.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.610][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.611][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-16 21:03:46.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-16 21:03:46.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.615][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:46.616][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:46.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.617][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:46.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-16 21:03:46.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.623][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:46.624][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:46.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.625][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.627][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-16 21:03:46.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-16 21:03:46.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.631][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:46.632][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:46.633][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.634][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.635][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-16 21:03:46.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-16 21:03:46.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.639][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:46.640][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:46.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.641][ef$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.643][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-16 21:03:46.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-16 21:03:46.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:46.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:46.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:46.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:46.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:46.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:46.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-16 21:03:46.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-16 21:03:46.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:46.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:46.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:46.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:46.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:46.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:46.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:46.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:46.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:46.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:46.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-16 21:03:46.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-16 21:03:46.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-16 21:03:46.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-16 21:03:46.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-16 21:03:46.690][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-06-16 21:03:46.693][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-16 21:03:46.694][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-06-16 21:03:46.695][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-06-16 21:03:46.696][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-16 21:03:46.697][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-16 21:03:46.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-16 21:03:46.699][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-16 21:03:46.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-16 21:03:46.701][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-16 21:03:46.701][FUN] Functions in observer 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 358 ]
> 
> proc.time()
   user  system elapsed 
 15.095   0.782  18.223

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

name	user	system	elapsed
ChebiConn	0.989	0.119	2.297
ChebiEntry	0.161	0.000	0.162