Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-14 13:04:56 -0500 (Fri, 14 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4327
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4076
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4137
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 nebbiolo2


To the developers/maintainers of the biodbChebi package:
- Please 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 How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 176/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.0.1  (landing page)
Pierrick Roger
Snapshot Date: 2022-01-13 01:55:04 -0500 (Thu, 13 Jan 2022)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_14
git_last_commit: 35326c0
git_last_commit_date: 2021-10-27 06:00:18 -0500 (Wed, 27 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: biodbChebi
Version: 1.0.1
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings biodbChebi_1.0.1.tar.gz
StartedAt: 2022-01-13 06:33:33 -0500 (Thu, 13 Jan 2022)
EndedAt: 2022-01-13 06:34:55 -0500 (Thu, 13 Jan 2022)
EllapsedTime: 81.6 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings biodbChebi_1.0.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/biodbChebi.Rcheck’
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.0.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

biodbChebi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/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 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2022-01-13 06:34:14.780][biodb::testContext] 
biodb.INFO [2022-01-13 06:34:14.782][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 06:34:14.784][biodb::testContext] Test context - Generic tests
biodb.INFO [2022-01-13 06:34:14.785][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 06:34:14.786][biodb::testContext] 
biodb.INFO [2022-01-13 06:34:14.803][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-13 06:34:14.805][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-13 06:34:14.813][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 06:34:14.815][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-13 06:34:14.816][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-13 06:34:14.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.820][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-13 06:34:14.839][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-13 06:34:14.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.843][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-13 06:34:14.844][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-13 06:34:14.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.848][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-13 06:34:14.849][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-13 06:34:14.850][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-13 06:34:14.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.853][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-13 06:34:14.854][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-13 06:34:14.856][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-13 06:34:14.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.859][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-13 06:34:14.860][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-13 06:34:14.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.864][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-13 06:34:14.865][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-13 06:34:14.866][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-13 06:34:14.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.869][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-13 06:34:14.871][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-13 06:34:14.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.874][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-13 06:34:14.875][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-13 06:34:14.876][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-13 06:34:14.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.880][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-13 06:34:14.881][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-13 06:34:14.882][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-13 06:34:14.883][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-13 06:34:14.884][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-13 06:34:14.885][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-13 06:34:14.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.889][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-13 06:34:14.890][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-13 06:34:14.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.893][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-13 06:34:14.894][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-13 06:34:14.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.898][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-13 06:34:14.899][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-13 06:34:14.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.903][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-13 06:34:14.904][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 06:34:14.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.907][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-13 06:34:14.908][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-13 06:34:14.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.912][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-13 06:34:14.913][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-13 06:34:14.918][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-01-13 06:34:14.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.922][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-13 06:34:14.923][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-13 06:34:14.924][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-13 06:34:14.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:14.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:14.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:14.931][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-13 06:34:14.975][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:14.989][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-13 06:34:14.990][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:14.991][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:14.992][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:14.993][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:14.994][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:14.995][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 06:34:14.996][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 06:34:14.997][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:14.998][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:14.998][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-13 06:34:14.999][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:15.000][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.001][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.002][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 06:34:15.002][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 06:34:15.002][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 06:34:15.002][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 06:34:15.002][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 06:34:15.003][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 06:34:15.004][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:15.004][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:15.005][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:15.006][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:15.007][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:15.008][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:15.009][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.009][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:15.010][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:15.011][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:15.012][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.013][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-13 06:34:15.015][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:15.016][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 06:34:15.017][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.018][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:15.018][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.019][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:15.020][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:15.021][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 06:34:15.022][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 06:34:15.023][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:15.024][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.025][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-13 06:34:15.026][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:15.026][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.027][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.028][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 06:34:15.028][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 06:34:15.028][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 06:34:15.028][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 06:34:15.028][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 06:34:15.029][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 06:34:15.030][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:15.031][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:15.032][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:15.033][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:15.033][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:15.034][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:15.035][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.036][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:15.037][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:15.038][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:15.039][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.040][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-13 06:34:15.041][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.042][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-13 06:34:15.043][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.044][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:15.045][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.046][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:15.047][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:15.048][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 06:34:15.049][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 06:34:15.050][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:15.050][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:15.051][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-13 06:34:15.052][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:15.053][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.054][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.055][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.056][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 06:34:15.057][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:15.058][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:15.059][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:15.060][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:15.060][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:15.061][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:15.062][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.063][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:15.064][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:15.065][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:15.066][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.067][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-13 06:34:15.068][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.069][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 06:34:15.070][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.071][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:15.072][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.073][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:15.074][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:15.075][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 06:34:15.075][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 06:34:15.076][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:15.077][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:15.078][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-13 06:34:15.079][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:15.080][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.081][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.082][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.083][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 06:34:15.084][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:15.084][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:15.085][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:15.086][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:15.087][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:15.088][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:15.089][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.090][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:15.091][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:15.091][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:15.092][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:15.096][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 06:34:15.097][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.107][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[2022-01-13 06:34:15.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.124][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[2022-01-13 06:34:15.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.128][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.DEBUG[2022-01-13 06:34:15.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.136][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[2022-01-13 06:34:15.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.170][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-13 06:34:15.175][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-13 06:34:15.177][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-13 06:34:15.178][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-13 06:34:15.180][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 06:34:15.181][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 06:34:15.183][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-13 06:34:15.184][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-13 06:34:15.186][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-13 06:34:15.187][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 06:34:15.189][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 06:34:15.190][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-13 06:34:15.191][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-13 06:34:15.193][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-13 06:34:15.194][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-13 06:34:15.196][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 06:34:15.197][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-13 06:34:15.198][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-13 06:34:15.200][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 06:34:15.201][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-13 06:34:15.203][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-13 06:34:15.204][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-13 06:34:15.213][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-13 06:34:15.214][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-13 06:34:15.216][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-13 06:34:15.217][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-13 06:34:15.218][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-13 06:34:15.220][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-13 06:34:15.221][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-13 06:34:15.222][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-13 06:34:15.223][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-13 06:34:15.225][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-13 06:34:15.226][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-13 06:34:15.227][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-13 06:34:15.229][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-13 06:34:15.230][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-13 06:34:15.231][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-13 06:34:15.233][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-13 06:34:15.234][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-13 06:34:15.236][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-13 06:34:15.237][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-13 06:34:15.238][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-13 06:34:15.240][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-13 06:34:15.241][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-13 06:34:15.242][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-13 06:34:15.244][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-13 06:34:15.245][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-13 06:34:15.247][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-13 06:34:15.248][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-13 06:34:15.250][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-13 06:34:15.251][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-13 06:34:15.252][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-13 06:34:15.254][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-13 06:34:15.255][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-13 06:34:15.257][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-13 06:34:15.258][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-13 06:34:15.260][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-13 06:34:15.261][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-13 06:34:15.263][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-13 06:34:15.264][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-13 06:34:15.266][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-13 06:34:15.267][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-13 06:34:15.268][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-13 06:34:15.270][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-13 06:34:15.271][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-13 06:34:15.273][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-13 06:34:15.274][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 06:34:15.276][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 06:34:15.277][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-13 06:34:15.279][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-13 06:34:15.280][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-13 06:34:15.282][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-13 06:34:15.283][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-13 06:34:15.284][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-13 06:34:15.286][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-13 06:34:15.287][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-13 06:34:15.289][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-13 06:34:15.290][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-13 06:34:15.291][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-13 06:34:15.293][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-13 06:34:15.294][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-13 06:34:15.296][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-13 06:34:15.297][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-13 06:34:15.303][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-13 06:34:15.305][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-13 06:34:15.308][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 06:34:15.309][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.311][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.312][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[2022-01-13 06:34:15.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.363][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[2022-01-13 06:34:15.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.380][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.DEBUG[2022-01-13 06:34:15.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.385][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[2022-01-13 06:34:15.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.407][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[2022-01-13 06:34:15.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:15.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:15.414][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2022-01-13 06:34:15.423][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2022-01-13 06:34:15.425][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:15.426][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-13 06:34:15.427][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.428][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:15.428][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.429][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:15.430][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.431][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2022-01-13 06:34:15.432][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-01-13 06:34:15.433][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:15.434][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.435][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2022-01-13 06:34:15.435][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:15.436][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2022-01-13 06:34:15.436][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2022-01-13 06:34:15.436][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2022-01-13 06:34:15.436][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2022-01-13 06:34:15.436][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2022-01-13 06:34:15.436][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2022-01-13 06:34:15.436][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2022-01-13 06:34:15.436][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2022-01-13 06:34:15.436][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2022-01-13 06:34:15.436][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2022-01-13 06:34:15.436][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2022-01-13 06:34:15.437][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:15.438][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 06:34:15.438][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 06:34:15.438][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 06:34:15.439][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-01-13 06:34:15.440][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:15.441][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:15.442][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:15.448][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:15.449][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:15.450][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:15.450][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:15.450][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2022-01-13 06:34:15.451][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:15.452][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:15.453][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:15.454][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2022-01-13 06:34:15.454][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2022-01-13 06:34:15.459][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 06:34:15.461][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 06:34:15.462][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2022-01-13 06:34:15.463][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 06:34:15.465][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 06:34:15.466][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 06:34:15.488][super$initialize] Initialize connector chebi.
biodb.DEBUG[2022-01-13 06:34:15.489][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2022-01-13 06:34:15.494][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2022-01-13 06:34:15.498][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2022-01-13 06:34:15.503][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 06:34:15.504][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 06:34:15.505][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2022-01-13 06:34:15.506][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2022-01-13 06:34:15.526][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:15.527][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2022-01-13 06:34:15.528][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:15.529][biodb::testThat] 
biodb.TRACE[2022-01-13 06:34:15.532][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.14-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2022-01-13 06:34:15.538][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:15.539][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:15.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:15.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:15.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:15.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:15.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:15.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:15.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:15.565][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.566][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.567][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.568][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.589][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:15.590][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:15.591][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.592][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.617][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:15.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:15.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.625][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:15.626][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:15.627][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.628][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.630][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:15.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:15.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.638][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:15.639][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:15.640][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.640][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:15.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:15.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.650][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:15.651][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:15.652][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.652][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.654][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:15.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:15.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.661][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:15.662][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:15.663][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.664][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.665][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:15.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:15.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.673][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:15.674][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:15.675][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.676][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.677][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:15.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:15.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.684][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:15.685][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:15.686][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.687][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:15.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:15.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.696][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:15.697][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:15.698][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.699][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:15.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:15.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.721][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:15.722][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:15.722][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.723][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.725][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:15.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:15.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.732][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:15.734][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:15.735][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.735][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.737][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:15.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:15.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:15.822][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2022-01-13 06:34:15.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:15.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:15.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:15.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:15.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.858][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:15.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:15.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.862][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:15.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:15.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:15.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:15.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:15.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:15.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.873][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 06:34:15.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 06:34:15.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.877][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 06:34:15.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 06:34:15.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.881][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 06:34:15.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 06:34:15.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.885][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 06:34:15.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 06:34:15.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:15.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:15.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:15.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:15.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:15.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.000][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:16.002][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:16.003][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.004][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:16.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:16.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.028][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.029][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.030][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.031][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.042][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:16.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:16.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.047][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:16.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:16.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:16.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:16.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.055][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:16.056][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:16.057][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.058][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.059][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:16.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:16.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.068][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:16.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:16.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.073][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:16.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:16.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.077][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:16.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:16.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.081][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:16.082][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:16.083][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.084][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.085][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:16.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:16.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.107][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.108][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.109][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.110][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.132][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.133][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.134][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.135][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.146][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:16.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:16.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.150][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:16.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:16.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.155][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:16.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:16.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.159][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:16.160][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:16.161][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.162][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.164][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:16.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:16.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.189][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.194][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.198][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.202][ef$get] Asked field names are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.203][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.204][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.205][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.206][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.216][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.220][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.225][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.229][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.231][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.232][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.232][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.234][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.243][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:16.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:16.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.247][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:16.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:16.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.251][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:16.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:16.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.255][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:16.256][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:16.257][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.258][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.259][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:16.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:16.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.271][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.275][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.279][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.280][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.281][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.282][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:16.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:16.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:16.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:16.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:16.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:16.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.302][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:16.303][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:16.304][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.305][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:16.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:16.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.314][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:16.315][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:16.316][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.316][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.319][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:16.320][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:16.321][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.322][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.325][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:16.326][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:16.327][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.327][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.330][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:16.331][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:16.332][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.333][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.336][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.337][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.337][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.338][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.341][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.342][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.343][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.344][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.347][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.348][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.349][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.349][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.352][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.353][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.354][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.355][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.358][ef$get] Asked field names are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.359][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.360][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.361][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.364][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:16.365][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:16.366][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.367][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.369][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:16.370][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:16.371][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.372][ef$get] fields variable is a list.
biodb.INFO [2022-01-13 06:34:16.376][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:16.377][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2022-01-13 06:34:16.378][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:16.379][biodb::testThat] 
biodb.DEBUG[2022-01-13 06:34:16.392][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2022-01-13 06:34:16.406][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:16.410][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2022-01-13 06:34:16.411][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:16.412][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2022-01-13 06:34:16.414][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:16.449][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:16.450][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:16.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:16.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:16.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:16.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:16.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:16.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:16.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:16.460][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:16.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:16.462][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.463][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:16.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:16.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.488][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:16.490][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:16.491][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.492][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.494][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:16.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:16.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.502][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:16.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:16.504][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.505][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.506][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:16.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:16.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.514][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:16.515][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:16.516][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.516][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:16.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:16.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.525][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.526][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.527][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.528][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:16.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.537][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.538][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.539][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.540][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.541][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:16.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.549][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:16.550][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.551][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.552][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.553][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:16.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:16.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.561][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.562][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.563][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.563][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:16.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.573][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:16.574][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:16.575][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.576][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.577][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:16.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:16.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.585][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:16.586][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.587][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.588][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.589][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:16.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:16.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.596][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:16.597][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:16.598][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.599][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.600][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:16.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:16.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:16.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:16.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:16.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:16.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:16.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:16.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:16.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:16.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:16.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:16.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:16.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:16.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:16.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:16.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:16.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:16.683][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2022-01-13 06:34:16.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2022-01-13 06:34:16.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2022-01-13 06:34:16.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2022-01-13 06:34:16.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2022-01-13 06:34:16.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2022-01-13 06:34:16.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2022-01-13 06:34:16.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 06:34:16.700][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:16.701][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2022-01-13 06:34:16.702][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:16.703][biodb::testThat] 
biodb.TRACE[2022-01-13 06:34:16.705][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:16.707][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:16.708][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.709][ef$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:16.710][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2022-01-13 06:34:16.732][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:16.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:16.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.737][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:16.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:16.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:16.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:16.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:16.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:16.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:16.747][function(conn, opt)] With value "squalene".
biodb.DEBUG[2022-01-13 06:34:16.758][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2022-01-13 06:34:16.776][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:16.792][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2022-01-13 06:34:16.794][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:16.796][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2022-01-13 06:34:16.820][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[2022-01-13 06:34:16.824][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:16.825][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:16.826][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2022-01-13 06:34:17.740][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2022-01-13 06:34:18.401][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:18.412][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2022-01-13 06:34:18.442][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2022-01-13 06:34:18.449][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2022-01-13 06:34:18.457][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:18.459][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:18.460][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.461][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.462][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:18.464][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:18.465][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.466][ef$get] fields variable is a list.
biodb.INFO [2022-01-13 06:34:18.468][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:18.469][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2022-01-13 06:34:18.492][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:18.493][biodb::testThat] 
biodb.TRACE[2022-01-13 06:34:18.511][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:18.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:18.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:18.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:18.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.522][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:18.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:18.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:18.590][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:18.595][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:18.597][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-01-13 06:34:18.599][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:18.601][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2022-01-13 06:34:18.613][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:18.615][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2022-01-13 06:34:18.616][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:18.617][biodb::testThat] 
biodb.TRACE[2022-01-13 06:34:18.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:18.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:18.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.657][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:18.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:18.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.662][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:18.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:18.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:18.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:18.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:18.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:18.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:18.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:18.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.681][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 06:34:18.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 06:34:18.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.685][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 06:34:18.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 06:34:18.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.690][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 06:34:18.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 06:34:18.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.694][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 06:34:18.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 06:34:18.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:18.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:18.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:18.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:18.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:18.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:18.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:18.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:18.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:18.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:18.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:18.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:18.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.763][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 06:34:18.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 06:34:18.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.768][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 06:34:18.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 06:34:18.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.775][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 06:34:18.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 06:34:18.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:18.780][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 06:34:18.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 06:34:18.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:18.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 06:34:18.792][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:18.794][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2022-01-13 06:34:18.796][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:18.797][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:18.804][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:18.805][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2022-01-13 06:34:18.807][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:18.808][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:18.814][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:18.815][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2022-01-13 06:34:18.816][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:18.817][biodb::testThat] 
biodb.DEBUG[2022-01-13 06:34:18.821][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2022-01-13 06:34:19.436][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2022-01-13 06:34:20.762][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:20.763][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2022-01-13 06:34:20.765][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:20.766][biodb::testThat] 
biodb.DEBUG[2022-01-13 06:34:21.195][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.INFO [2022-01-13 06:34:21.636][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:21.638][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2022-01-13 06:34:21.639][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:21.640][biodb::testThat] 
biodb.TRACE[2022-01-13 06:34:21.648][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:21.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:21.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:21.653][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:21.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:21.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:21.657][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:21.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:21.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:21.699][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:21.702][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:21.704][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-01-13 06:34:21.705][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:21.707][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2022-01-13 06:34:21.715][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:21.719][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:21.720][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-01-13 06:34:21.722][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:21.723][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2022-01-13 06:34:21.733][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 06:34:21.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 06:34:21.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:21.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:21.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:21.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:21.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:21.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:21.781][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:21.785][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:21.786][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1e3885f0c8b7bc081513880959401862".
biodb.TRACE[2022-01-13 06:34:21.788][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:21.790][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1e3885f0c8b7bc081513880959401862.content".
biodb.DEBUG[2022-01-13 06:34:21.794][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:21.797][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:21.798][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4b7e19492b2d1086a5dba1710a3b39b".
biodb.TRACE[2022-01-13 06:34:21.800][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:21.801][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f4b7e19492b2d1086a5dba1710a3b39b.content".
biodb.DEBUG[2022-01-13 06:34:21.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:21.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:21.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:21.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:21.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:21.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:21.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:21.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:21.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:21.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:21.841][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:21.844][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:21.845][cch$loadFileContent] Trying to load 1 files from cache: [1]: "d57f841033be8ab371045edb0388ed60".
biodb.TRACE[2022-01-13 06:34:21.847][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:21.848][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d57f841033be8ab371045edb0388ed60.content".
biodb.DEBUG[2022-01-13 06:34:21.866][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:21.869][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:21.871][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-01-13 06:34:21.872][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:21.874][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2022-01-13 06:34:21.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:21.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:21.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:21.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:21.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:21.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:21.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:21.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:21.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:21.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:21.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:21.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:21.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:21.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:21.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:21.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:21.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:21.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:21.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:21.921][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2022-01-13 06:34:21.969][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:21.972][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2022-01-13 06:34:21.973][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:21.974][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:21.976][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:21.977][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:21.978][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:21.979][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:21.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:21.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:21.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:21.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:21.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:21.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:21.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:21.990][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2022-01-13 06:34:22.006][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:22.008][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:22.025][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2022-01-13 06:34:22.430][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2022-01-13 06:34:22.849][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:22.857][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2022-01-13 06:34:22.870][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2022-01-13 06:34:22.883][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2022-01-13 06:34:22.888][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:22.907][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:22.908][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:22.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:22.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:22.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:22.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:22.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:22.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:22.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:22.938][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:22.940][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:22.941][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:22.942][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:22.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:22.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:22.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:22.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:22.951][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:22.952][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:22.953][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:22.954][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:22.955][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:22.956][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:22.957][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:22.958][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:22.960][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:22.961][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:22.962][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:22.963][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:22.964][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:22.965][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:22.966][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:22.967][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:22.968][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:22.969][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:22.970][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:22.971][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:22.973][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:22.974][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:22.975][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:22.976][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:22.977][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:22.978][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:22.979][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:22.980][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:22.981][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:22.982][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:22.983][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:22.984][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:22.986][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:22.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:22.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:22.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:22.991][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:22.992][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:22.993][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:22.994][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:22.996][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:22.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:22.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:22.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.001][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:23.003][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:23.003][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.004][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:23.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:23.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:23.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:23.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:23.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:23.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:23.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:23.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:23.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:23.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:23.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:23.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:23.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:23.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:23.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:23.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:23.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:23.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:23.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:23.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:23.048][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2022-01-13 06:34:23.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:23.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:23.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:23.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:23.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:23.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:23.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:23.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:23.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:23.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:23.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:23.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:23.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:23.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:23.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:23.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:23.085][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:23.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:23.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:23.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:23.089][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2022-01-13 06:34:23.090][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:23.092][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2022-01-13 06:34:23.093][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:23.094][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:23.095][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:23.097][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:23.098][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:23.099][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:23.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:23.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:23.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:23.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:23.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:23.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:23.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:23.134][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2022-01-13 06:34:23.137][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:23.138][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:23.139][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2022-01-13 06:34:23.548][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2022-01-13 06:34:23.960][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:23.965][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2022-01-13 06:34:23.972][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2022-01-13 06:34:23.978][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2022-01-13 06:34:23.981][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:23.989][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:23.990][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:23.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:23.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:23.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:23.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:23.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:23.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:23.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:24.000][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:24.001][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:24.002][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.002][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:24.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:24.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.009][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:24.010][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:24.011][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.012][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.013][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:24.014][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:24.015][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.016][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.018][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:24.019][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:24.020][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.020][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.022][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:24.023][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:24.024][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.025][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.026][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:24.027][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:24.028][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.029][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.030][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:24.031][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:24.032][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.033][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.034][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:24.035][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:24.036][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.037][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.038][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:24.039][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:24.040][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.041][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.043][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:24.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:24.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.049][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:24.051][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:24.052][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.052][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.054][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:24.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:24.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.060][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:24.061][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:24.062][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.063][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:24.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:24.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:24.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:24.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:24.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:24.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:24.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:24.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:24.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:24.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:24.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:24.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:24.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:24.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:24.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:24.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:24.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:24.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:24.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:24.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:24.114][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2022-01-13 06:34:24.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:24.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:24.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:24.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:24.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:24.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:24.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:24.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:24.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:24.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:24.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:24.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:24.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:24.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:24.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:24.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:24.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:24.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:24.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:24.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:24.141][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2022-01-13 06:34:24.142][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:24.144][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2022-01-13 06:34:24.145][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:24.147][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:24.148][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:24.149][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:24.150][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:24.151][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:24.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:24.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:24.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:24.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:24.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:24.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:24.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:24.161][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2022-01-13 06:34:24.164][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:24.165][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:24.167][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2022-01-13 06:34:24.565][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2022-01-13 06:34:24.991][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:25.001][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2022-01-13 06:34:25.017][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2022-01-13 06:34:25.032][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2022-01-13 06:34:25.039][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:25.054][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:25.056][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:25.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:25.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:25.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:25.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:25.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:25.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:25.071][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[2022-01-13 06:34:25.075][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:25.076][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:25.078][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.079][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:25.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:25.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.091][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:25.093][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:25.095][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.096][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.099][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:25.100][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:25.102][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.103][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.106][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:25.107][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:25.109][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.110][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.112][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:25.114][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:25.115][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.116][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.118][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:25.120][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:25.122][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.123][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.125][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:25.127][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:25.128][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.129][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.131][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:25.133][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:25.134][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.136][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.137][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:25.139][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:25.141][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.142][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.145][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:25.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:25.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.155][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:25.158][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:25.160][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.162][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.169][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:25.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:25.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.177][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:25.178][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:25.179][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.180][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:25.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:25.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:25.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:25.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:25.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:25.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:25.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:25.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:25.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:25.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:25.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:25.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:25.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:25.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:25.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:25.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:25.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:25.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:25.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:25.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:25.220][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2022-01-13 06:34:25.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:25.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:25.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:25.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:25.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:25.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:25.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:25.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:25.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:25.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:25.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:25.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:25.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:25.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:25.240][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:25.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:25.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:25.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:25.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:25.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:25.246][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2022-01-13 06:34:25.247][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:25.248][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2022-01-13 06:34:25.249][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:25.250][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:25.251][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:25.252][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:25.253][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:25.254][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:25.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:25.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:25.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:25.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:25.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:25.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:25.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:25.264][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2022-01-13 06:34:25.266][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:25.267][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:25.268][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2022-01-13 06:34:25.711][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2022-01-13 06:34:26.208][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:26.216][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2022-01-13 06:34:26.225][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2022-01-13 06:34:26.233][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2022-01-13 06:34:26.236][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:26.245][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:26.246][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:26.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:26.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:26.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:26.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:26.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:26.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:26.255][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[2022-01-13 06:34:26.258][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:26.259][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:26.260][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.261][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:26.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:26.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.277][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:26.279][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:26.280][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.280][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.282][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:26.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:26.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.287][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:26.288][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:26.289][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.290][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.292][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:26.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:26.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.297][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:26.298][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:26.299][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.300][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:26.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:26.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.307][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:26.308][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:26.309][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.310][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:26.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:26.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.317][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:26.318][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:26.319][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.320][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.321][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:26.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:26.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.327][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:26.328][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:26.329][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.330][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.331][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:26.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:26.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.337][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:26.338][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:26.339][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.340][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:26.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:26.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.347][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:26.348][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:26.348][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.349][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.351][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:26.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:26.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.356][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:26.357][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:26.358][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.359][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.360][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:26.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:26.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.365][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:26.366][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:26.367][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.368][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.369][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:26.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:26.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:26.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:26.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:26.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:26.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:26.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:26.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:26.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:26.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:26.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:26.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:26.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:26.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:26.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:26.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:26.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:26.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:26.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:26.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:26.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:26.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:26.414][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2022-01-13 06:34:26.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:26.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:26.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:26.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:26.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:26.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:26.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:26.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:26.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:26.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:26.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:26.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:26.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:26.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:26.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:26.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:26.441][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2022-01-13 06:34:26.442][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:26.444][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2022-01-13 06:34:26.446][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:26.447][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:26.448][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:26.449][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:26.450][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:26.451][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:26.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:26.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:26.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:26.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:26.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:26.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:26.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:26.464][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2022-01-13 06:34:26.482][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:26.483][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:26.485][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2022-01-13 06:34:26.965][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2022-01-13 06:34:27.473][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:27.480][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2022-01-13 06:34:27.489][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2022-01-13 06:34:27.498][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2022-01-13 06:34:27.501][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:27.510][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:27.512][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:27.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:27.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:27.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:27.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:27.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:27.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:27.521][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.TRACE[2022-01-13 06:34:27.524][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:27.526][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:27.527][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.528][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:27.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:27.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.537][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:27.538][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:27.539][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.541][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.542][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:27.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:27.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.549][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:27.550][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:27.551][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.553][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.555][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:27.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:27.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.562][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:27.563][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:27.564][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.565][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:27.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:27.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.574][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:27.575][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:27.576][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.577][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.579][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:27.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:27.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.585][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:27.586][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:27.587][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.588][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.590][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:27.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:27.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.596][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:27.597][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:27.598][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.599][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.600][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:27.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:27.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.606][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:27.607][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:27.608][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.609][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:27.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:27.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.617][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:27.619][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:27.620][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.621][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.622][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:27.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:27.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.629][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:27.630][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:27.631][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.632][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.633][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:27.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:27.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.639][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:27.640][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:27.641][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.642][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.643][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:27.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:27.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:27.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:27.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:27.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:27.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:27.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:27.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:27.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:27.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:27.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:27.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:27.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:27.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:27.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:27.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:27.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:27.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:27.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:27.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:27.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:27.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:27.702][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2022-01-13 06:34:27.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:27.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:27.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:27.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:27.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:27.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:27.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:27.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:27.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:27.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:27.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:27.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:27.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:27.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:27.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:27.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:27.723][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2022-01-13 06:34:27.724][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:27.726][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2022-01-13 06:34:27.727][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:27.728][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:27.729][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:27.730][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:27.731][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:27.732][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:27.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:27.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:27.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:27.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:27.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:27.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:27.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:27.742][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2022-01-13 06:34:27.745][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:27.746][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:27.747][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2022-01-13 06:34:28.202][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2022-01-13 06:34:28.641][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:28.650][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2022-01-13 06:34:28.664][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2022-01-13 06:34:28.678][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2022-01-13 06:34:28.684][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:28.700][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:28.702][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:28.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:28.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:28.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:28.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:28.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:28.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:28.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:28.721][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:28.724][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:28.725][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.727][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:28.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:28.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.739][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:28.741][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:28.743][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.744][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.747][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:28.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:28.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.757][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:28.759][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:28.761][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.763][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.765][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:28.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:28.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.796][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:28.798][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:28.799][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.800][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.802][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:28.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:28.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.808][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:28.809][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:28.810][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.811][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:28.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:28.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.818][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:28.819][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:28.820][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.821][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.822][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:28.823][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:28.824][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.825][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.826][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:28.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:28.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.832][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:28.833][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:28.834][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.835][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:28.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:28.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.843][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:28.844][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:28.844][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.845][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.847][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:28.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:28.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.852][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:28.853][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:28.854][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.855][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.856][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:28.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:28.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.861][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:28.862][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:28.863][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.864][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.865][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:28.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:28.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:28.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:28.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:28.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:28.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:28.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:28.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:28.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:28.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:28.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:28.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:28.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:28.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:28.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:28.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:28.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:28.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:28.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:28.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:28.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:28.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:28.910][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2022-01-13 06:34:28.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:28.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:28.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:28.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:28.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:28.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:28.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:28.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:28.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:28.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:28.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:28.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:28.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:28.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:28.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:28.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:28.930][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2022-01-13 06:34:28.931][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:28.933][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2022-01-13 06:34:28.934][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:28.935][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:28.936][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:28.937][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:28.939][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:28.940][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:28.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:28.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:28.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:28.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:28.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:28.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:28.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:28.951][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2022-01-13 06:34:28.953][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:28.954][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:28.956][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2022-01-13 06:34:29.412][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2022-01-13 06:34:29.836][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:29.840][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2022-01-13 06:34:29.847][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2022-01-13 06:34:29.853][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2022-01-13 06:34:29.855][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:29.862][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:29.863][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:29.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:29.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:29.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:29.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:29.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:29.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:29.871][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[2022-01-13 06:34:29.873][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:29.874][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:29.875][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.875][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:29.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:29.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.882][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:29.883][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:29.883][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.884][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.885][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:29.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:29.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.890][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:29.891][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:29.892][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.893][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.894][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:29.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:29.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.899][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:29.900][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:29.901][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.902][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.903][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:29.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:29.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.908][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:29.909][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:29.910][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.910][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:29.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:29.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.917][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:29.918][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:29.918][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.919][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.920][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:29.921][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:29.922][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.923][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.924][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:29.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:29.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.929][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:29.930][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:29.931][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.932][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:29.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:29.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.938][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:29.939][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:29.940][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.940][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.942][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:29.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:29.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.947][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:29.948][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:29.949][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.949][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.951][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:29.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:29.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.956][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:29.957][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:29.957][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.958][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.959][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:29.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:29.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:29.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:29.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:29.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:29.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:29.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:29.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:29.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:29.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:29.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:29.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:29.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:29.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:29.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:29.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:29.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:29.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:30.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:30.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:30.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:30.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:30.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:30.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:30.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:30.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:30.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:30.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:30.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:30.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:30.025][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2022-01-13 06:34:30.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:30.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:30.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:30.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:30.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:30.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:30.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:30.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:30.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:30.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:30.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:30.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:30.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:30.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:30.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:30.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:30.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:30.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:30.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:30.046][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2022-01-13 06:34:30.047][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:30.048][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2022-01-13 06:34:30.050][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:30.051][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:30.052][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:30.053][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:30.054][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:30.055][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:30.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:30.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:30.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:30.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:30.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:30.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:30.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:30.064][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2022-01-13 06:34:30.067][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:30.068][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:30.070][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2022-01-13 06:34:30.543][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2022-01-13 06:34:31.119][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:31.123][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2022-01-13 06:34:31.131][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2022-01-13 06:34:31.138][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2022-01-13 06:34:31.141][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:31.149][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:31.150][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:31.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:31.153][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:31.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:31.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:31.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:31.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:31.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:31.160][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:31.162][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:31.162][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.163][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:31.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:31.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.170][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:31.171][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:31.172][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.173][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.175][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:31.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:31.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.180][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:31.181][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:31.182][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.183][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.184][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:31.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:31.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.190][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:31.191][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:31.192][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.192][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:31.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:31.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.200][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:31.201][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:31.202][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.203][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:31.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:31.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.209][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:31.211][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:31.211][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.212][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.213][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:31.214][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:31.222][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.224][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.225][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:31.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:31.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.230][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:31.231][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:31.232][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.232][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:31.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:31.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.239][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:31.240][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:31.241][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.241][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.243][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:31.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:31.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.248][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:31.249][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:31.250][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.251][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.252][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:31.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:31.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.257][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:31.258][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:31.259][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.260][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.261][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:31.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:31.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:31.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:31.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:31.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:31.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:31.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:31.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:31.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:31.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:31.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:31.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:31.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:31.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:31.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:31.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:31.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:31.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:31.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:31.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:31.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:31.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:31.304][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2022-01-13 06:34:31.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:31.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:31.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:31.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:31.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:31.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:31.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:31.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:31.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:31.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:31.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:31.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:31.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:31.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:31.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:31.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:31.322][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2022-01-13 06:34:31.323][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:31.325][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2022-01-13 06:34:31.326][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:31.327][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:31.328][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:31.329][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:31.330][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:31.330][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:31.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:31.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:31.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:31.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:31.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:31.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:31.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:31.339][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2022-01-13 06:34:31.342][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:31.343][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:31.344][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2022-01-13 06:34:31.755][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2022-01-13 06:34:32.246][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:32.251][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2022-01-13 06:34:32.258][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2022-01-13 06:34:32.265][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2022-01-13 06:34:32.277][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:32.284][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:32.286][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:32.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:32.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:32.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:32.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:32.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:32.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:32.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:32.295][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:32.296][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:32.297][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.298][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:32.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:32.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.305][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:32.306][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:32.307][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.308][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.309][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:32.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:32.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.314][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:32.315][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:32.316][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.317][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.318][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:32.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:32.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.324][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:32.324][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:32.325][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.326][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:32.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:32.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.333][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:32.334][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:32.335][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.336][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.337][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:32.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:32.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.342][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:32.343][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:32.344][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.345][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.346][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:32.347][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:32.348][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.349][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.350][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:32.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:32.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.355][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:32.356][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:32.357][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.358][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:32.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:32.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.365][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:32.366][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:32.367][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.367][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.369][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:32.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:32.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.374][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:32.375][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:32.376][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.377][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.378][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:32.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:32.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.384][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:32.385][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:32.385][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.386][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.388][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:32.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:32.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:32.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:32.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:32.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:32.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:32.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:32.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:32.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:32.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:32.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:32.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:32.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:32.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:32.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:32.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:32.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:32.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:32.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:32.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:32.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:32.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:32.431][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2022-01-13 06:34:32.432][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:32.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:32.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:32.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:32.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:32.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:32.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:32.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:32.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:32.444][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:32.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:32.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:32.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:32.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:32.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:32.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:32.454][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2022-01-13 06:34:32.455][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:32.457][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2022-01-13 06:34:32.458][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:32.459][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:32.460][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:32.461][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:32.462][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:32.463][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:32.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:32.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:32.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:32.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:32.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:32.470][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:32.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:32.472][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2022-01-13 06:34:32.474][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:32.475][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:32.476][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2022-01-13 06:34:33.099][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2022-01-13 06:34:33.653][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:33.659][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2022-01-13 06:34:33.668][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2022-01-13 06:34:33.676][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2022-01-13 06:34:33.679][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:33.688][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:33.689][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:33.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:33.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:33.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:33.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:33.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:33.700][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:33.702][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[2022-01-13 06:34:33.705][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:33.707][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:33.709][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.710][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:33.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:33.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.721][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:33.723][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:33.725][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.726][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.728][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:33.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:33.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.737][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:33.739][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:33.741][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.742][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.744][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:33.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:33.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.753][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:33.755][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:33.757][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.758][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.760][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:33.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:33.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.770][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:33.771][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:33.773][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.774][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:33.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:33.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.785][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:33.787][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:33.789][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.790][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.792][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:33.794][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:33.795][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.797][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.799][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:33.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:33.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.808][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:33.809][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:33.811][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.812][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:33.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:33.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.823][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:33.825][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:33.827][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.828][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.832][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:33.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:33.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.852][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:33.853][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:33.854][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.855][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.856][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:33.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:33.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.861][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:33.862][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:33.863][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.864][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.865][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:33.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:33.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:33.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:33.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:33.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:33.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:33.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:33.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:33.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:33.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:33.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:33.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:33.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:33.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:33.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:33.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:33.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:33.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:33.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:33.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:33.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:33.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:33.909][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2022-01-13 06:34:33.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:33.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:33.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:33.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:33.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:33.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:33.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:33.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:33.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:33.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:33.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:33.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:33.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:33.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:33.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:33.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:33.939][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2022-01-13 06:34:33.940][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:33.942][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2022-01-13 06:34:33.943][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:33.944][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:33.946][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:33.947][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:33.948][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:33.949][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:33.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:33.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:33.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:33.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:33.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:33.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:33.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:33.961][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2022-01-13 06:34:33.964][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:33.965][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:33.967][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2022-01-13 06:34:34.435][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2022-01-13 06:34:34.855][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:34.860][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2022-01-13 06:34:34.867][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2022-01-13 06:34:34.874][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2022-01-13 06:34:34.877][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:34.885][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:34.886][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:34.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:34.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:34.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:34.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:34.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:34.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:34.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:34.898][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:34.899][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:34.900][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.901][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:34.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:34.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.924][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:34.925][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:34.926][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.927][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.928][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:34.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:34.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.934][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:34.935][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:34.936][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.937][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.939][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:34.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:34.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.945][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:34.946][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:34.947][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.948][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.949][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:34.950][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:34.951][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.952][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.954][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:34.955][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:34.956][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.957][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.958][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:34.959][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:34.960][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.961][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.962][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:34.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:34.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.968][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:34.969][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:34.970][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.971][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:34.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:34.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.979][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:34.980][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:34.981][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.982][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:34.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:34.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.989][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:34.991][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:34.992][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.993][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:34.994][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:34.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:34.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:34.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:35.000][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:35.001][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:35.002][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.002][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:35.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:35.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:35.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:35.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:35.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:35.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:35.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:35.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:35.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:35.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:35.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:35.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:35.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:35.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:35.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:35.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:35.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:35.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:35.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:35.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:35.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:35.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:35.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:35.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:35.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:35.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:35.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:35.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:35.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:35.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:35.046][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2022-01-13 06:34:35.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:35.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:35.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:35.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:35.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:35.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:35.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:35.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:35.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:35.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:35.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:35.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:35.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:35.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:35.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:35.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:35.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:35.067][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2022-01-13 06:34:35.068][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:35.070][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2022-01-13 06:34:35.071][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:35.072][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:35.074][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:35.075][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:35.076][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:35.077][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:35.079][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:35.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:35.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:35.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:35.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:35.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:35.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:35.087][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2022-01-13 06:34:35.090][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:35.091][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:35.092][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2022-01-13 06:34:35.541][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2022-01-13 06:34:36.065][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:36.073][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2022-01-13 06:34:36.087][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2022-01-13 06:34:36.099][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2022-01-13 06:34:36.104][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:36.117][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:36.119][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:36.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:36.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:36.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:36.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:36.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:36.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:36.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:36.135][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:36.137][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:36.138][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.139][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:36.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:36.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.150][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:36.152][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:36.153][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.155][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.157][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:36.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:36.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.166][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:36.168][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:36.169][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.171][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.173][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:36.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:36.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.182][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:36.183][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:36.185][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.186][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.188][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:36.190][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:36.191][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.193][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.195][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:36.196][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:36.198][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.199][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.201][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:36.203][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:36.204][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.206][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.208][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:36.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:36.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.217][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:36.219][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:36.220][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.222][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:36.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:36.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.233][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:36.234][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:36.235][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.236][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.238][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:36.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:36.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.244][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:36.245][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:36.248][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.249][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.252][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:36.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:36.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.260][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:36.262][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:36.263][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.264][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:36.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:36.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:36.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:36.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:36.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:36.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:36.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:36.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:36.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:36.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:36.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:36.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:36.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:36.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:36.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:36.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:36.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:36.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:36.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:36.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:36.330][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2022-01-13 06:34:36.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:36.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:36.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:36.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:36.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:36.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:36.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:36.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:36.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:36.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:36.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:36.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:36.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:36.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:36.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:36.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:36.351][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2022-01-13 06:34:36.352][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:36.354][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2022-01-13 06:34:36.355][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:36.356][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:36.357][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:36.358][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:36.359][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:36.360][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:36.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:36.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:36.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:36.367][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:36.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:36.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:36.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:36.371][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2022-01-13 06:34:36.374][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:36.375][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:36.376][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2022-01-13 06:34:36.786][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2022-01-13 06:34:37.258][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:37.266][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2022-01-13 06:34:37.279][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2022-01-13 06:34:37.291][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2022-01-13 06:34:37.296][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:37.310][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:37.313][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:37.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:37.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:37.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:37.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:37.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:37.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:37.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:37.330][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:37.331][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:37.333][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.334][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:37.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:37.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.344][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:37.346][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:37.347][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.349][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.351][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:37.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:37.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.359][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:37.361][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:37.363][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.364][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.366][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:37.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:37.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.376][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:37.378][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:37.379][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.381][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.383][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:37.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:37.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.396][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:37.398][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:37.399][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.400][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.402][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:37.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:37.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.408][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:37.409][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:37.410][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.411][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.413][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:37.414][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:37.415][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.416][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.417][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:37.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:37.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.423][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:37.424][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:37.425][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.426][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:37.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:37.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.449][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:37.450][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:37.451][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.452][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:37.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:37.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.460][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:37.461][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:37.462][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.463][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.464][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:37.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:37.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.471][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:37.472][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:37.473][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.474][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.476][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:37.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:37.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:37.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:37.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:37.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:37.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:37.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:37.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:37.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:37.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:37.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:37.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:37.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:37.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:37.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:37.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:37.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:37.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:37.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:37.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:37.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:37.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:37.525][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2022-01-13 06:34:37.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:37.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:37.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:37.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:37.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:37.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:37.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:37.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:37.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:37.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:37.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:37.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:37.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:37.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:37.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:37.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:37.558][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2022-01-13 06:34:37.559][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:37.561][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2022-01-13 06:34:37.563][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:37.564][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:37.565][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:37.566][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:37.567][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:37.568][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:37.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:37.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:37.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:37.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:37.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:37.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:37.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:37.580][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2022-01-13 06:34:37.584][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:37.585][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:37.586][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2022-01-13 06:34:38.068][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2022-01-13 06:34:38.760][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:38.768][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2022-01-13 06:34:38.779][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2022-01-13 06:34:38.790][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2022-01-13 06:34:38.794][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:38.808][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:38.810][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:38.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:38.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:38.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:38.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:38.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:38.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:38.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:38.851][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:38.853][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:38.854][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.856][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:38.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:38.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.867][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:38.868][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:38.870][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.872][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.876][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:38.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:38.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.888][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:38.889][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:38.890][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.891][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.892][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:38.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:38.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.898][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:38.899][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:38.900][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.901][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:38.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:38.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.908][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:38.909][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:38.910][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.911][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:38.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:38.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.918][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:38.919][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:38.920][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.921][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.922][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:38.923][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:38.924][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.925][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.927][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:38.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:38.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.933][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:38.934][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:38.935][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.936][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:38.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:38.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.943][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:38.944][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:38.945][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.946][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.948][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:38.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:38.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.953][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:38.955][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:38.955][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.956][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.958][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:38.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:38.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.963][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:38.964][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:38.965][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.966][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.967][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:38.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:38.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:38.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:38.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:38.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:38.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:38.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:38.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:38.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:38.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:38.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:38.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:38.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:38.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:38.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:38.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:38.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:38.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:39.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:39.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:39.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:39.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:39.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:39.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:39.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:39.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:39.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:39.013][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2022-01-13 06:34:39.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:39.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:39.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:39.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:39.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:39.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:39.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:39.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:39.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:39.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:39.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:39.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:39.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:39.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:39.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:39.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:39.033][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2022-01-13 06:34:39.034][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:39.036][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2022-01-13 06:34:39.037][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:39.038][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:39.039][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:39.040][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:39.048][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:39.050][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:39.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:39.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:39.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:39.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:39.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:39.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:39.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:39.060][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2022-01-13 06:34:39.062][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:39.063][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:39.065][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2022-01-13 06:34:39.472][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2022-01-13 06:34:39.883][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:39.891][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2022-01-13 06:34:39.902][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2022-01-13 06:34:39.911][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2022-01-13 06:34:39.916][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:39.927][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:39.929][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:39.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:39.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:39.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:39.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:39.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:39.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:39.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:39.944][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:39.945][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:39.947][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.948][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:39.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:39.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:39.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:39.958][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:39.960][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:39.961][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.962][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:39.964][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:39.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:39.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:39.972][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:39.973][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:39.974][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.976][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:39.977][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:39.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:39.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:39.990][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:39.992][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:39.994][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.995][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:39.996][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:39.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:39.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:39.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.002][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:40.003][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:40.004][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.005][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:40.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:40.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.012][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:40.013][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:40.013][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.014][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.016][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:40.017][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:40.018][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.018][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.020][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:40.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:40.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.025][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:40.026][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:40.027][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.028][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:40.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:40.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.035][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:40.036][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:40.037][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.038][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:40.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:40.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.045][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:40.046][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:40.047][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.048][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.049][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:40.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:40.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.055][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:40.056][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:40.057][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.057][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.059][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:40.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:40.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:40.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:40.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:40.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:40.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:40.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:40.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:40.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:40.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:40.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:40.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:40.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:40.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:40.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:40.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:40.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:40.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:40.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:40.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:40.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:40.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:40.115][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2022-01-13 06:34:40.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:40.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:40.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:40.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:40.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:40.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:40.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:40.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:40.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:40.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:40.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:40.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:40.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:40.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:40.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:40.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:40.135][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2022-01-13 06:34:40.136][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:40.138][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2022-01-13 06:34:40.139][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:40.141][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:40.142][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:40.143][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:40.144][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:40.145][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:40.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:40.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:40.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:40.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:40.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:40.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:40.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:40.156][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2022-01-13 06:34:40.159][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:40.160][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:40.161][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2022-01-13 06:34:40.570][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2022-01-13 06:34:40.995][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:41.006][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2022-01-13 06:34:41.025][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2022-01-13 06:34:41.039][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2022-01-13 06:34:41.044][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:41.053][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:41.055][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:41.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:41.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:41.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:41.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:41.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:41.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:41.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:41.066][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:41.067][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:41.068][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.069][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:41.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:41.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.077][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:41.078][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:41.079][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.080][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.081][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:41.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:41.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.087][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:41.094][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:41.100][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.102][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.103][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:41.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:41.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.110][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:41.111][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:41.112][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.113][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:41.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:41.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.120][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:41.121][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:41.122][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.123][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:41.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:41.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.131][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:41.132][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:41.133][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.134][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.135][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:41.136][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:41.137][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.138][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.139][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:41.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:41.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.146][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:41.147][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:41.148][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.149][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:41.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:41.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.156][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:41.157][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:41.158][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.159][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.161][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:41.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:41.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.167][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:41.168][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:41.169][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.170][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.171][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:41.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:41.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.177][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:41.178][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:41.179][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.180][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.182][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:41.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:41.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:41.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:41.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:41.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:41.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:41.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:41.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:41.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:41.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:41.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:41.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:41.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:41.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:41.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:41.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:41.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:41.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:41.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:41.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:41.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:41.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:41.231][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2022-01-13 06:34:41.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:41.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:41.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:41.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:41.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:41.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:41.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:41.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:41.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:41.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:41.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:41.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:41.248][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:41.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:41.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:41.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:41.252][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2022-01-13 06:34:41.253][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:41.255][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2022-01-13 06:34:41.256][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:41.257][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:41.258][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:41.259][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:41.260][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:41.261][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:41.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:41.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:41.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:41.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:41.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:41.270][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:41.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:41.272][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2022-01-13 06:34:41.275][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:41.276][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:41.278][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2022-01-13 06:34:41.705][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2022-01-13 06:34:42.151][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:42.156][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2022-01-13 06:34:42.164][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2022-01-13 06:34:42.170][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2022-01-13 06:34:42.173][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:42.181][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:42.182][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:42.184][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.193][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:42.194][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:42.195][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.196][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:42.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:42.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.203][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:42.204][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:42.205][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.206][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.207][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:42.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:42.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.212][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:42.214][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:42.214][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.215][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.217][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:42.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:42.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.222][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:42.223][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:42.224][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.225][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:42.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:42.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.232][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:42.233][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:42.234][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.235][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:42.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:42.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.242][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:42.243][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:42.244][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.245][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.246][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:42.247][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.248][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.249][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.250][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:42.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.256][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.257][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.258][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.259][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.265][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:42.266][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:42.267][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.268][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.270][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:42.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:42.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.275][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:42.276][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:42.277][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.278][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.279][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:42.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:42.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.285][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:42.286][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:42.287][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.288][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.289][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:42.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:42.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:42.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:42.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:42.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:42.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:42.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:42.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:42.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:42.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:42.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:42.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:42.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:42.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:42.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:42.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:42.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:42.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:42.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:42.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:42.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:42.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.341][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2022-01-13 06:34:42.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.365][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:42.368][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:42.370][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-01-13 06:34:42.371][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:42.372][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2022-01-13 06:34:42.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.544][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.652][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.657][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.680][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:42.728][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:42.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:42.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:42.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:42.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:42.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:42.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:42.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:42.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:42.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:42.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:42.804][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:42.807][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:42.808][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:42.809][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2022-01-13 06:34:43.206][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2022-01-13 06:34:43.633][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:43.640][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1eb5a44d25716d90ff717fcfe93533e3.content"
biodb.TRACE[2022-01-13 06:34:43.650][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1eb5a44d25716d90ff717fcfe93533e3.request"
biodb.DEBUG[2022-01-13 06:34:43.658][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[2022-01-13 06:34:43.662][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:43.663][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:43.666][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2022-01-13 06:34:44.111][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2022-01-13 06:34:44.542][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:44.552][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ef91a3654a792571304ae6f83c5871b.content"
biodb.TRACE[2022-01-13 06:34:44.569][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ef91a3654a792571304ae6f83c5871b.request"
biodb.DEBUG[2022-01-13 06:34:44.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:44.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:44.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:44.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:44.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:44.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:44.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:44.597][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2022-01-13 06:34:44.599][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:44.602][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2022-01-13 06:34:44.604][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:44.605][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:44.606][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:44.607][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:44.608][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:44.609][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:44.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:44.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:44.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:44.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:44.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:44.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:44.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:44.620][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2022-01-13 06:34:44.623][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:44.624][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:44.626][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2022-01-13 06:34:45.053][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2022-01-13 06:34:45.484][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:45.490][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2022-01-13 06:34:45.498][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2022-01-13 06:34:45.504][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2022-01-13 06:34:45.507][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:45.516][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:45.517][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:45.519][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:45.520][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:45.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:45.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:45.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:45.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:45.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:45.529][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:45.530][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:45.531][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.532][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:45.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:45.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.539][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:45.540][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:45.541][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.542][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.564][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:45.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:45.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.571][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:45.572][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:45.573][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.574][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.575][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:45.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:45.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.581][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:45.582][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:45.583][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.584][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:45.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:45.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.591][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:45.592][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:45.592][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.593][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:45.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:45.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.600][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:45.601][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:45.602][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.603][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.604][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:45.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:45.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.609][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:45.610][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:45.611][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.612][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.613][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:45.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:45.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.618][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.619][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.620][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.621][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.628][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:45.629][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:45.630][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.630][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.632][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:45.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:45.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.637][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:45.638][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:45.639][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.640][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.641][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:45.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:45.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.647][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:45.648][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:45.649][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.650][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.651][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:45.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:45.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:45.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:45.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:45.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:45.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:45.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:45.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:45.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:45.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:45.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:45.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:45.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:45.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:45.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:45.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:45.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:45.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:45.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:45.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:45.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:45.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:45.696][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2022-01-13 06:34:45.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:45.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:45.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:45.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:45.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:45.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:45.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:45.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:45.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:45.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:45.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:45.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:45.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:45.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:45.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:45.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:45.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:45.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:45.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:45.731][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2022-01-13 06:34:45.731][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:45.733][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2022-01-13 06:34:45.739][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 06:34:45.740][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 06:34:45.741][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:45.742][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:45.743][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-13 06:34:45.744][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-13 06:34:45.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:45.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:45.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:45.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:45.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:45.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:45.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:45.754][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2022-01-13 06:34:45.756][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-13 06:34:45.757][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-13 06:34:45.758][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2022-01-13 06:34:46.185][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2022-01-13 06:34:46.644][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-13 06:34:46.649][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2022-01-13 06:34:46.656][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2022-01-13 06:34:46.662][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2022-01-13 06:34:46.665][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-13 06:34:46.672][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:46.673][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:46.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:46.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:46.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:46.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:46.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:46.680][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:46.680][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.TRACE[2022-01-13 06:34:46.683][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:46.684][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:46.684][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.685][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:46.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:46.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.692][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:46.693][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:46.694][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.695][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.696][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:46.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:46.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.703][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:46.704][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:46.705][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.706][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.708][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:46.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:46.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.714][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:46.715][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:46.716][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.717][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.718][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:46.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:46.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.723][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:46.724][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:46.725][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.726][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:46.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:46.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.732][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:46.733][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:46.734][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.735][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.736][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:46.737][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:46.738][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.739][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.740][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:46.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:46.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.746][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.747][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.748][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.749][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.757][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:46.758][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:46.759][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.760][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.761][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:46.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:46.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.766][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:46.767][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:46.768][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.769][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.770][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:46.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:46.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.784][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:46.785][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:46.786][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.787][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.788][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:46.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:46.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:46.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:46.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:46.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:46.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:46.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:46.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:46.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:46.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:46.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:46.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:46.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:46.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:46.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:46.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:46.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:46.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:46.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:46.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:46.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:46.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:46.832][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2022-01-13 06:34:46.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:46.856][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:46.859][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:46.860][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-01-13 06:34:46.861][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:46.862][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2022-01-13 06:34:46.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:46.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:46.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:46.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:46.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:46.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:46.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:46.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:46.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:46.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:46.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:46.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:46.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:46.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:46.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:46.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:46.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:46.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:46.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:46.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:46.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:46.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:46.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:46.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.925][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:46.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:46.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:46.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:46.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:46.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:46.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:46.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:46.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.959][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:46.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:46.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:46.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:46.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:46.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:46.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:46.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:46.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:46.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:46.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:46.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:46.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:46.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:46.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:46.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:46.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:46.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:46.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:46.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.027][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.218][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.247][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:47.250][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:47.251][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2022-01-13 06:34:47.252][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:47.254][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2022-01-13 06:34:47.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.266][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.425][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.484][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.537][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.635][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-13 06:34:47.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-13 06:34:47.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 06:34:47.649][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:47.650][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2022-01-13 06:34:47.651][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:47.652][biodb::testThat] 
biodb.TRACE[2022-01-13 06:34:47.655][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 06:34:47.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 06:34:47.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:47.731][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:47.734][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:47.736][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1e3885f0c8b7bc081513880959401862".
biodb.TRACE[2022-01-13 06:34:47.737][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:47.739][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1e3885f0c8b7bc081513880959401862.content".
biodb.DEBUG[2022-01-13 06:34:47.742][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:47.744][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:47.746][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4b7e19492b2d1086a5dba1710a3b39b".
biodb.TRACE[2022-01-13 06:34:47.747][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:47.748][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f4b7e19492b2d1086a5dba1710a3b39b.content".
biodb.DEBUG[2022-01-13 06:34:47.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:47.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.769][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:47.772][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:47.773][cch$loadFileContent] Trying to load 1 files from cache: [1]: "d57f841033be8ab371045edb0388ed60".
biodb.TRACE[2022-01-13 06:34:47.774][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:47.776][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d57f841033be8ab371045edb0388ed60.content".
biodb.DEBUG[2022-01-13 06:34:47.778][private$bdb$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-13 06:34:47.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:47.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.794][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:47.795][private$selectFields] 
biodb.TRACE[2022-01-13 06:34:47.795][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 06:34:47.796][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 06:34:47.797][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:47.798][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.800][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.801][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.802][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.803][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.804][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.805][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.805][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:47.806][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:47.807][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.808][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.809][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.810][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.811][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-01-13 06:34:47.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:47.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.839][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2022-01-13 06:34:47.841][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2022-01-13 06:34:47.842][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-01-13 06:34:47.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:47.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:47.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:47.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:47.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:47.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:47.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:47.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:47.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:47.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:47.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:47.997][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:48.000][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:48.001][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c60f2116f91d4ce61370ae6298305b49".
biodb.TRACE[2022-01-13 06:34:48.002][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:48.004][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c60f2116f91d4ce61370ae6298305b49.content".
biodb.DEBUG[2022-01-13 06:34:48.007][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:48.009][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:48.010][cch$loadFileContent] Trying to load 1 files from cache: [1]: "921bb2fccd1f3497458cb7cf8fd2ffda".
biodb.TRACE[2022-01-13 06:34:48.012][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:48.013][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/921bb2fccd1f3497458cb7cf8fd2ffda.content".
biodb.DEBUG[2022-01-13 06:34:48.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:48.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:48.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:48.093][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-13 06:34:48.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.130][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.131][private$selectFields] 
biodb.TRACE[2022-01-13 06:34:48.132][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 06:34:48.133][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 06:34:48.134][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.135][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.136][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.137][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.137][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.138][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.140][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.141][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.142][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.143][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.144][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.145][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.146][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.147][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.148][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-01-13 06:34:48.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.166][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2022-01-13 06:34:48.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.213][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.214][private$selectFields] 
biodb.TRACE[2022-01-13 06:34:48.215][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 06:34:48.216][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 06:34:48.217][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.218][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.219][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.220][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.221][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.224][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.225][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.225][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.235][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.236][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.238][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.238][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.239][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.240][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-01-13 06:34:48.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.253][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2022-01-13 06:34:48.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.268][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.269][private$selectFields] 
biodb.TRACE[2022-01-13 06:34:48.270][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 06:34:48.271][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 06:34:48.272][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.275][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.276][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.277][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.278][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.279][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.280][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.280][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.281][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.282][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.283][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.284][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.285][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.286][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-01-13 06:34:48.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.298][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2022-01-13 06:34:48.299][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-13 06:34:48.300][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-01-13 06:34:48.305][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-13 06:34:48.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-13 06:34:48.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 06:34:48.344][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:48.346][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2022-01-13 06:34:48.349][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:48.350][biodb::testThat] 
biodb.TRACE[2022-01-13 06:34:48.355][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 06:34:48.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 06:34:48.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:48.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:48.443][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:48.447][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:48.449][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1e3885f0c8b7bc081513880959401862".
biodb.TRACE[2022-01-13 06:34:48.451][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:48.452][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1e3885f0c8b7bc081513880959401862.content".
biodb.DEBUG[2022-01-13 06:34:48.456][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:48.459][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:48.461][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4b7e19492b2d1086a5dba1710a3b39b".
biodb.TRACE[2022-01-13 06:34:48.462][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:48.463][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f4b7e19492b2d1086a5dba1710a3b39b.content".
biodb.DEBUG[2022-01-13 06:34:48.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:48.487][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:48.490][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:48.491][cch$loadFileContent] Trying to load 1 files from cache: [1]: "d57f841033be8ab371045edb0388ed60".
biodb.TRACE[2022-01-13 06:34:48.493][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:48.494][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d57f841033be8ab371045edb0388ed60.content".
biodb.DEBUG[2022-01-13 06:34:48.497][private$bdb$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-13 06:34:48.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.502][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.514][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.515][private$selectFields] 
biodb.TRACE[2022-01-13 06:34:48.516][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 06:34:48.517][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 06:34:48.518][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.519][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.520][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.521][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.522][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.523][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.524][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.525][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.526][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.527][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.528][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.529][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.531][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.531][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.532][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.533][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-01-13 06:34:48.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.554][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2022-01-13 06:34:48.554][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2022-01-13 06:34:48.555][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-01-13 06:34:48.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:48.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:48.631][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:48.634][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:48.635][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c60f2116f91d4ce61370ae6298305b49".
biodb.TRACE[2022-01-13 06:34:48.636][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:48.638][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c60f2116f91d4ce61370ae6298305b49.content".
biodb.DEBUG[2022-01-13 06:34:48.640][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:48.643][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:48.644][cch$loadFileContent] Trying to load 1 files from cache: [1]: "921bb2fccd1f3497458cb7cf8fd2ffda".
biodb.TRACE[2022-01-13 06:34:48.645][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:48.646][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/921bb2fccd1f3497458cb7cf8fd2ffda.content".
biodb.DEBUG[2022-01-13 06:34:48.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:48.667][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:48.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:48.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:48.703][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-13 06:34:48.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.725][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.726][private$selectFields] 
biodb.TRACE[2022-01-13 06:34:48.727][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 06:34:48.727][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 06:34:48.728][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.729][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.730][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.731][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.732][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.733][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.734][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.735][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.736][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.737][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.738][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.740][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.740][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.741][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.742][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-01-13 06:34:48.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.755][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2022-01-13 06:34:48.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.762][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[2022-01-13 06:34:48.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.770][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.771][private$selectFields] 
biodb.TRACE[2022-01-13 06:34:48.772][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 06:34:48.773][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 06:34:48.774][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.774][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.775][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.776][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.777][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.778][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.779][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.780][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.781][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.782][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.782][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.783][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.784][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.785][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.786][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.787][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-01-13 06:34:48.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.799][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2022-01-13 06:34:48.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.814][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.815][private$selectFields] 
biodb.TRACE[2022-01-13 06:34:48.816][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 06:34:48.816][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 06:34:48.817][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.818][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.819][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.820][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.821][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.822][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.823][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.824][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.824][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.825][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.826][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:48.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.829][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.830][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.831][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-01-13 06:34:48.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.843][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2022-01-13 06:34:48.844][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-13 06:34:48.845][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-01-13 06:34:48.850][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-13 06:34:48.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-13 06:34:48.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 06:34:48.855][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:48.856][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2022-01-13 06:34:48.857][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:48.858][biodb::testThat] 
biodb.TRACE[2022-01-13 06:34:48.860][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 06:34:48.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 06:34:48.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:48.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:48.941][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:48.944][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:48.946][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1e3885f0c8b7bc081513880959401862".
biodb.TRACE[2022-01-13 06:34:48.947][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:48.948][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1e3885f0c8b7bc081513880959401862.content".
biodb.DEBUG[2022-01-13 06:34:48.951][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:48.954][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:48.955][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4b7e19492b2d1086a5dba1710a3b39b".
biodb.TRACE[2022-01-13 06:34:48.956][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:48.958][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f4b7e19492b2d1086a5dba1710a3b39b.content".
biodb.DEBUG[2022-01-13 06:34:48.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.970][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:48.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:48.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:48.978][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:48.981][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:48.982][cch$loadFileContent] Trying to load 1 files from cache: [1]: "d57f841033be8ab371045edb0388ed60".
biodb.TRACE[2022-01-13 06:34:48.984][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:48.985][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d57f841033be8ab371045edb0388ed60.content".
biodb.DEBUG[2022-01-13 06:34:48.987][private$bdb$entriesToDataframe] 1 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-13 06:34:48.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:48.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:48.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:48.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:48.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:48.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:48.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:48.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:48.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:48.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.004][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.005][private$selectFields] 
biodb.TRACE[2022-01-13 06:34:49.005][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 06:34:49.006][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 06:34:49.007][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.008][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.010][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.010][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.011][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.012][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.013][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.014][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.015][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.016][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.017][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.018][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.019][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.020][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.021][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.022][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-01-13 06:34:49.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.035][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2022-01-13 06:34:49.036][private$entriesToListOfDataframes] Converted 1 entry/ies to data frame(s).
biodb.DEBUG[2022-01-13 06:34:49.037][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-01-13 06:34:49.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:49.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:49.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:49.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:49.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:49.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:49.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:49.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:49.129][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:49.132][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:49.133][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c60f2116f91d4ce61370ae6298305b49".
biodb.TRACE[2022-01-13 06:34:49.134][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:49.135][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c60f2116f91d4ce61370ae6298305b49.content".
biodb.DEBUG[2022-01-13 06:34:49.138][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:49.141][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:49.142][cch$loadFileContent] Trying to load 1 files from cache: [1]: "921bb2fccd1f3497458cb7cf8fd2ffda".
biodb.TRACE[2022-01-13 06:34:49.143][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:49.144][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/921bb2fccd1f3497458cb7cf8fd2ffda.content".
biodb.DEBUG[2022-01-13 06:34:49.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:49.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:49.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:49.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:49.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:49.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:49.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:49.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:49.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:49.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:49.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:49.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:49.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:49.170][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:49.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:49.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:49.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:49.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:49.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:49.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:49.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:49.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:49.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:49.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:49.201][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-13 06:34:49.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:49.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:49.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:49.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:49.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:49.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:49.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:49.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.217][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.218][private$selectFields] 
biodb.TRACE[2022-01-13 06:34:49.219][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 06:34:49.225][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 06:34:49.227][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.228][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.229][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.230][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.231][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.231][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.232][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.233][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.234][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.235][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.236][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.237][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.238][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.239][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.240][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.240][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-01-13 06:34:49.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.253][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2022-01-13 06:34:49.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:49.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:49.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:49.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:49.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:49.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:49.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:49.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.269][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.269][private$selectFields] 
biodb.TRACE[2022-01-13 06:34:49.270][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 06:34:49.271][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 06:34:49.272][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.275][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.276][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.276][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.277][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.278][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.279][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.280][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.281][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.282][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.283][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.283][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.284][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.285][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-01-13 06:34:49.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.297][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2022-01-13 06:34:49.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:49.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:49.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:49.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:49.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:49.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:49.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:49.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.312][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.313][private$selectFields] 
biodb.TRACE[2022-01-13 06:34:49.314][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-13 06:34:49.315][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-13 06:34:49.316][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.317][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.318][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.319][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.319][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.320][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.321][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.322][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.323][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.324][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.325][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2022-01-13 06:34:49.326][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.327][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.327][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.328][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.329][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2022-01-13 06:34:49.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.342][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2022-01-13 06:34:49.343][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-13 06:34:49.344][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-01-13 06:34:49.355][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-13 06:34:49.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-13 06:34:49.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 06:34:49.360][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:49.361][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2022-01-13 06:34:49.361][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:49.362][biodb::testThat] 
biodb.DEBUG[2022-01-13 06:34:49.364][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2022-01-13 06:34:49.365][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-13 06:34:49.366][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2022-01-13 06:34:49.368][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:49.369][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2022-01-13 06:34:49.370][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:49.380][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2022-01-13 06:34:49.381][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:49.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:49.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:49.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:49.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:49.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:49.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:49.394][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.TRACE[2022-01-13 06:34:49.397][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.398][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.399][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.400][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.409][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:49.410][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:49.410][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.411][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.412][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:49.413][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:49.414][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.415][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.416][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:49.417][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:49.418][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.419][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.420][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:49.421][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:49.422][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.423][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.424][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:49.425][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:49.425][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.426][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.427][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:49.428][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:49.429][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.430][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.431][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.432][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.433][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.434][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.435][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:49.436][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:49.437][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.437][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.439][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:49.440][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:49.441][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.442][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.443][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:49.444][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:49.445][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.446][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:49.489][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2022-01-13 06:34:49.489][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.INFO [2022-01-13 06:34:49.494][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:49.495][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2022-01-13 06:34:49.496][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:49.497][biodb::testThat] 
biodb.DEBUG[2022-01-13 06:34:49.505][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2022-01-13 06:34:49.506][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2022-01-13 06:34:49.507][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-13 06:34:49.509][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2022-01-13 06:34:49.510][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2022-01-13 06:34:49.512][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[2022-01-13 06:34:49.513][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 06:34:49.523][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2022-01-13 06:34:49.525][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2022-01-13 06:34:49.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:49.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:49.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:49.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:49.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:49.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:49.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:49.535][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.536][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.537][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.538][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.548][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:49.549][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:49.550][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.551][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.552][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:49.553][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:49.554][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.555][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.556][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:49.557][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:49.558][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.559][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.560][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:49.561][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:49.568][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.569][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.571][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:49.572][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:49.573][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.574][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.575][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:49.576][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:49.577][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.578][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.579][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.580][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.581][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.582][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.583][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:49.584][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:49.584][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.585][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.586][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:49.587][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:49.588][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.589][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.590][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:49.591][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:49.593][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.594][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:49.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:49.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:49.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:49.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:49.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:49.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:49.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:49.653][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.655][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.656][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.658][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.668][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:49.669][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:49.670][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.671][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.672][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:49.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:49.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.680][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:49.680][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:49.681][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.682][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.684][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:49.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:49.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.691][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:49.692][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:49.693][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.693][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:49.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:49.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.702][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:49.703][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:49.704][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.705][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:49.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:49.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.713][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:49.714][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:49.715][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.716][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.717][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:49.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:49.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.725][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:49.726][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:49.727][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.728][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.729][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:49.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:49.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.736][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.737][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.738][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.739][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.747][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:49.748][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:49.749][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.750][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.751][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:49.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:49.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.765][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:49.766][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:49.767][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.768][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.769][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:49.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:49.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.776][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:49.777][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:49.778][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.779][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.780][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:49.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:49.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:49.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:49.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:49.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:49.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:49.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:49.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:49.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 06:34:49.826][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.827][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.828][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.829][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.837][ef$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:49.838][ef$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:49.839][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.840][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.844][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2022-01-13 06:34:49.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2022-01-13 06:34:49.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.852][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:49.853][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:49.854][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.854][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.856][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 06:34:49.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 06:34:49.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.864][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:49.865][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:49.866][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.867][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.868][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 06:34:49.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 06:34:49.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.881][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:49.883][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:49.884][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.885][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.886][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 06:34:49.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 06:34:49.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.894][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:49.896][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:49.897][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.897][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.899][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:49.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 06:34:49.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.907][ef$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:49.908][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:49.909][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.909][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.911][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2022-01-13 06:34:49.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 06:34:49.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.918][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.919][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.920][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.921][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 06:34:49.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.930][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:49.931][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:49.931][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.932][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.934][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 06:34:49.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 06:34:49.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.952][ef$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:49.953][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:49.954][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.955][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.956][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2022-01-13 06:34:49.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2022-01-13 06:34:49.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.964][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:49.965][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:49.966][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.967][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.969][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 06:34:49.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 06:34:49.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 06:34:49.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:49.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:49.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:49.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:49.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:50.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:50.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:50.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:50.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:50.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:50.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:50.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:50.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:50.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:50.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:50.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:50.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:50.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:50.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:50.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:50.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:50.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:50.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:50.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:50.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:50.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:50.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:50.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:50.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:50.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:50.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:50.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:50.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:50.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:50.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:50.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:50.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:50.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:50.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:50.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 06:34:50.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 06:34:50.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 06:34:50.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 06:34:50.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 06:34:50.039][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2022-01-13 06:34:50.039][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.DEBUG[2022-01-13 06:34:50.040][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2022-01-13 06:34:50.047][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:50.048][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2022-01-13 06:34:50.049][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:50.049][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:50.067][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:50.068][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2022-01-13 06:34:50.069][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:50.070][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:50.074][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:50.075][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2022-01-13 06:34:50.076][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:50.076][biodb::testThat] 
biodb.DEBUG[2022-01-13 06:34:50.079][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:50.081][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:50.082][cch$loadFileContent] Trying to load 1 files from cache: [1]: "abfdad4f2c265f1c152262cabd0cf864".
biodb.TRACE[2022-01-13 06:34:50.084][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:50.085][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/abfdad4f2c265f1c152262cabd0cf864.content".
biodb.INFO [2022-01-13 06:34:50.092][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:50.093][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2022-01-13 06:34:50.094][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:50.095][biodb::testThat] 
biodb.ERROR[2022-01-13 06:34:50.105][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2022-01-13 06:34:50.122][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2022-01-13 06:34:50.127][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-13 06:34:50.128][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2022-01-13 06:34:50.129][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2022-01-13 06:34:50.130][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-13 06:34:50.131][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.132][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.134][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-13 06:34:50.139][biodb::testContext] 
biodb.INFO [2022-01-13 06:34:50.140][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 06:34:50.141][biodb::testContext] Test context - Test conversions
biodb.INFO [2022-01-13 06:34:50.141][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 06:34:50.142][biodb::testContext] 
biodb.INFO [2022-01-13 06:34:50.148][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-13 06:34:50.150][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-13 06:34:50.154][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 06:34:50.155][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-13 06:34:50.156][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-13 06:34:50.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.159][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-13 06:34:50.160][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-13 06:34:50.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.163][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-13 06:34:50.164][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-13 06:34:50.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.168][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-13 06:34:50.168][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-13 06:34:50.169][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-13 06:34:50.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.173][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-13 06:34:50.174][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-13 06:34:50.175][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-13 06:34:50.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.178][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-13 06:34:50.179][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-13 06:34:50.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.182][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-13 06:34:50.183][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-13 06:34:50.184][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-13 06:34:50.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.186][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[2022-01-13 06:34:50.187][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-13 06:34:50.188][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-13 06:34:50.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.191][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-13 06:34:50.192][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-13 06:34:50.193][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-13 06:34:50.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.196][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-13 06:34:50.197][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-13 06:34:50.198][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-13 06:34:50.199][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-13 06:34:50.200][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-13 06:34:50.201][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-13 06:34:50.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.204][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-13 06:34:50.205][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-13 06:34:50.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.209][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-13 06:34:50.210][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-13 06:34:50.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.213][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-13 06:34:50.214][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-13 06:34:50.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.217][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-13 06:34:50.218][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 06:34:50.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.222][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-13 06:34:50.223][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-13 06:34:50.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.225][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.DEBUG[2022-01-13 06:34:50.226][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-13 06:34:50.227][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-13 06:34:50.232][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-01-13 06:34:50.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.235][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-13 06:34:50.236][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-13 06:34:50.237][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-13 06:34:50.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.241][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-13 06:34:50.242][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.243][self$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[2022-01-13 06:34:50.244][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.245][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:50.246][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.247][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.248][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.249][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.250][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 06:34:50.251][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:50.252][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.253][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-13 06:34:50.254][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:50.255][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.255][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.256][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 06:34:50.256][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 06:34:50.256][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 06:34:50.256][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 06:34:50.256][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 06:34:50.257][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 06:34:50.258][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:50.259][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:50.260][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:50.261][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:50.262][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:50.263][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.264][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.264][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:50.265][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:50.266][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.267][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.268][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-13 06:34:50.270][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.271][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 06:34:50.272][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.273][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:50.274][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.275][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.275][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.276][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.277][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 06:34:50.284][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:50.286][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.287][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-13 06:34:50.288][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:50.289][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.290][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.291][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 06:34:50.291][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 06:34:50.291][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 06:34:50.291][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 06:34:50.291][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 06:34:50.292][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 06:34:50.293][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:50.293][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:50.294][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:50.295][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:50.296][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:50.297][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.298][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.299][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:50.299][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:50.300][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.301][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.302][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-13 06:34:50.304][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.305][self$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[2022-01-13 06:34:50.306][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.307][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:50.308][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.309][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.310][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.310][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.311][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 06:34:50.312][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:50.313][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.314][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-13 06:34:50.315][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:50.316][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.317][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.318][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.319][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 06:34:50.319][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:50.320][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:50.321][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:50.322][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:50.323][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:50.324][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.325][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.326][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:50.326][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:50.327][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.328][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.329][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-13 06:34:50.331][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.332][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 06:34:50.333][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.334][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:50.335][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.336][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.336][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.337][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.338][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 06:34:50.339][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:50.340][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.341][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-13 06:34:50.342][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:50.343][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.344][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.345][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.346][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 06:34:50.346][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:50.347][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:50.348][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:50.349][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:50.350][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:50.351][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.352][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.353][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:50.353][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:50.354][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.355][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:50.357][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 06:34:50.357][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.358][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.DEBUG[2022-01-13 06:34:50.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.383][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[2022-01-13 06:34:50.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.387][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[2022-01-13 06:34:50.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.404][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[2022-01-13 06:34:50.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.416][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[2022-01-13 06:34:50.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.420][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[2022-01-13 06:34:50.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.424][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[2022-01-13 06:34:50.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.427][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[2022-01-13 06:34:50.428][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-13 06:34:50.430][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-13 06:34:50.431][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-13 06:34:50.432][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-13 06:34:50.434][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 06:34:50.435][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 06:34:50.436][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-13 06:34:50.443][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-13 06:34:50.445][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-13 06:34:50.446][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 06:34:50.448][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 06:34:50.449][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-13 06:34:50.450][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-13 06:34:50.451][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-13 06:34:50.453][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-13 06:34:50.454][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 06:34:50.455][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-13 06:34:50.456][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-13 06:34:50.458][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 06:34:50.459][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-13 06:34:50.460][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-13 06:34:50.462][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-13 06:34:50.463][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-13 06:34:50.464][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-13 06:34:50.466][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-13 06:34:50.467][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-13 06:34:50.471][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-13 06:34:50.472][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-13 06:34:50.474][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-13 06:34:50.475][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-13 06:34:50.476][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-13 06:34:50.478][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-13 06:34:50.479][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-13 06:34:50.480][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-13 06:34:50.482][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-13 06:34:50.483][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-13 06:34:50.484][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-13 06:34:50.485][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-13 06:34:50.487][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-13 06:34:50.488][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-13 06:34:50.489][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-13 06:34:50.491][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-13 06:34:50.492][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-13 06:34:50.493][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-13 06:34:50.495][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-13 06:34:50.496][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-13 06:34:50.497][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-13 06:34:50.499][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-13 06:34:50.500][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-13 06:34:50.501][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-13 06:34:50.503][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-13 06:34:50.504][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-13 06:34:50.505][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-13 06:34:50.507][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-13 06:34:50.508][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-13 06:34:50.509][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-13 06:34:50.511][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-13 06:34:50.512][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-13 06:34:50.514][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-13 06:34:50.515][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-13 06:34:50.516][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-13 06:34:50.518][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-13 06:34:50.521][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-13 06:34:50.522][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-13 06:34:50.524][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-13 06:34:50.525][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-13 06:34:50.526][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 06:34:50.528][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 06:34:50.529][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-13 06:34:50.530][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-13 06:34:50.532][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-13 06:34:50.533][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-13 06:34:50.535][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-13 06:34:50.536][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-13 06:34:50.537][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-13 06:34:50.539][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-13 06:34:50.540][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-13 06:34:50.541][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-13 06:34:50.543][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-13 06:34:50.544][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-13 06:34:50.545][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-13 06:34:50.547][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-13 06:34:50.548][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-13 06:34:50.549][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-13 06:34:50.551][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-13 06:34:50.552][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 06:34:50.553][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.555][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.575][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[2022-01-13 06:34:50.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.587][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[2022-01-13 06:34:50.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.636][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[2022-01-13 06:34:50.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.661][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[2022-01-13 06:34:50.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.670][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2022-01-13 06:34:50.673][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2022-01-13 06:34:50.676][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.677][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.679][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.680][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:50.682][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.683][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.685][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.686][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2022-01-13 06:34:50.688][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-01-13 06:34:50.689][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:50.690][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.692][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2022-01-13 06:34:50.693][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:50.695][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2022-01-13 06:34:50.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2022-01-13 06:34:50.695][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2022-01-13 06:34:50.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2022-01-13 06:34:50.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2022-01-13 06:34:50.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2022-01-13 06:34:50.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2022-01-13 06:34:50.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2022-01-13 06:34:50.695][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2022-01-13 06:34:50.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2022-01-13 06:34:50.695][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2022-01-13 06:34:50.696][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:50.697][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 06:34:50.697][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 06:34:50.697][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 06:34:50.699][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-01-13 06:34:50.700][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:50.701][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:50.702][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:50.704][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:50.705][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:50.706][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:50.707][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2022-01-13 06:34:50.707][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2022-01-13 06:34:50.708][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:50.710][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:50.711][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:50.712][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2022-01-13 06:34:50.712][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2022-01-13 06:34:50.714][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 06:34:50.716][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 06:34:50.718][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2022-01-13 06:34:50.720][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 06:34:50.722][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 06:34:50.724][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 06:34:50.728][super$initialize] Initialize connector chebi.
biodb.DEBUG[2022-01-13 06:34:50.730][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2022-01-13 06:34:50.731][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2022-01-13 06:34:50.733][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2022-01-13 06:34:50.735][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 06:34:50.736][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 06:34:50.738][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2022-01-13 06:34:50.739][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2022-01-13 06:34:50.741][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:50.742][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2022-01-13 06:34:50.743][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:50.745][biodb::testThat] 
biodb.DEBUG[2022-01-13 06:34:50.750][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2022-01-13 06:34:50.754][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:50.756][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2022-01-13 06:34:50.757][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:50.759][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2022-01-13 06:34:50.764][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:50.768][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:50.770][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2022-01-13 06:34:50.771][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:50.773][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2022-01-13 06:34:50.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:50.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.783][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:50.786][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:50.787][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2022-01-13 06:34:50.788][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:50.790][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2022-01-13 06:34:50.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:50.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:50.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.826][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:50.829][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:50.830][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2022-01-13 06:34:50.831][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:50.832][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2022-01-13 06:34:50.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:50.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.841][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:50.844][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:50.845][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2022-01-13 06:34:50.846][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:50.847][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2022-01-13 06:34:50.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:50.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:50.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.859][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.865][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:50.868][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:50.869][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2022-01-13 06:34:50.870][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:50.872][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2022-01-13 06:34:50.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:50.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.881][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:50.883][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:50.884][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2022-01-13 06:34:50.886][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:50.887][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2022-01-13 06:34:50.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:50.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.896][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:50.899][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:50.900][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2022-01-13 06:34:50.901][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:50.902][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2022-01-13 06:34:50.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:50.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-13 06:34:50.913][biodb::testThat] 
biodb.INFO [2022-01-13 06:34:50.913][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2022-01-13 06:34:50.914][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 06:34:50.915][biodb::testThat] 
biodb.DEBUG[2022-01-13 06:34:50.918][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:50.921][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:50.922][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3d0a94707e73df0ba810a5a87df958c6".
biodb.TRACE[2022-01-13 06:34:50.923][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:50.924][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3d0a94707e73df0ba810a5a87df958c6.content".
biodb.DEBUG[2022-01-13 06:34:50.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:50.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.935][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2022-01-13 06:34:50.938][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-13 06:34:50.939][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c23a09621704f6dcea62f90283def982".
biodb.TRACE[2022-01-13 06:34:50.940][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 06:34:50.942][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c23a09621704f6dcea62f90283def982.content".
biodb.DEBUG[2022-01-13 06:34:50.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 06:34:50.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-13 06:34:50.951][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-13 06:34:50.952][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2022-01-13 06:34:50.953][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2022-01-13 06:34:50.954][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-13 06:34:50.955][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:50.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:50.956][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:50.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:50.958][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-13 06:34:50.962][biodb::testContext] 
biodb.INFO [2022-01-13 06:34:50.963][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 06:34:50.964][biodb::testContext] Test context - Test web services
biodb.INFO [2022-01-13 06:34:50.965][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 06:34:50.966][biodb::testContext] 
biodb.INFO [2022-01-13 06:34:50.972][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-13 06:34:50.973][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-13 06:34:50.977][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 06:34:50.978][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-13 06:34:50.979][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-13 06:34:50.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.982][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[2022-01-13 06:34:50.987][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-13 06:34:50.989][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-13 06:34:50.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:50.993][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-13 06:34:50.994][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-13 06:34:50.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:50.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:50.996][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[2022-01-13 06:34:50.997][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-13 06:34:50.998][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-13 06:34:50.999][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-13 06:34:50.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.002][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-13 06:34:51.003][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-13 06:34:51.004][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-13 06:34:51.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.006][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.DEBUG[2022-01-13 06:34:51.007][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-13 06:34:51.008][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-13 06:34:51.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.011][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-13 06:34:51.012][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-13 06:34:51.013][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-13 06:34:51.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.016][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-13 06:34:51.017][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-13 06:34:51.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.021][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-13 06:34:51.022][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-13 06:34:51.023][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-13 06:34:51.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.026][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-13 06:34:51.027][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-13 06:34:51.028][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-13 06:34:51.029][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-13 06:34:51.029][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-13 06:34:51.030][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-13 06:34:51.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.034][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-13 06:34:51.035][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-13 06:34:51.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.037][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.DEBUG[2022-01-13 06:34:51.038][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-13 06:34:51.039][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-13 06:34:51.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.042][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-13 06:34:51.043][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-13 06:34:51.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.046][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-13 06:34:51.047][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 06:34:51.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.050][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-13 06:34:51.051][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-13 06:34:51.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.055][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-13 06:34:51.056][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-13 06:34:51.060][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-01-13 06:34:51.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.063][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-13 06:34:51.064][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-13 06:34:51.065][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-13 06:34:51.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.069][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-13 06:34:51.070][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:51.071][self$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[2022-01-13 06:34:51.072][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.073][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:51.074][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.075][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:51.076][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:51.077][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 06:34:51.077][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 06:34:51.078][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:51.079][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.080][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-13 06:34:51.081][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:51.082][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.083][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.084][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 06:34:51.084][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 06:34:51.084][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 06:34:51.084][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 06:34:51.084][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 06:34:51.085][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 06:34:51.085][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:51.086][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:51.087][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:51.088][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:51.089][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:51.090][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:51.091][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.091][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:51.092][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:51.093][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:51.094][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.095][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-13 06:34:51.097][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:51.098][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 06:34:51.099][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.099][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:51.100][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.101][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:51.102][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:51.103][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 06:34:51.104][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 06:34:51.105][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:51.106][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.107][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-13 06:34:51.108][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:51.109][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.110][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.111][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 06:34:51.111][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 06:34:51.111][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 06:34:51.111][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 06:34:51.111][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 06:34:51.112][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 06:34:51.113][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:51.114][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:51.114][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:51.115][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:51.116][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:51.117][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:51.118][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.119][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:51.120][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:51.120][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:51.121][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.122][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-13 06:34:51.124][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.125][self$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[2022-01-13 06:34:51.126][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.127][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:51.128][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.129][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:51.130][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:51.131][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 06:34:51.132][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 06:34:51.132][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:51.133][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:51.134][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-13 06:34:51.135][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:51.136][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.137][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.138][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.139][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 06:34:51.140][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:51.141][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:51.147][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:51.148][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:51.149][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:51.150][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:51.151][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.152][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:51.153][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:51.154][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:51.155][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.156][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-13 06:34:51.157][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.158][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 06:34:51.159][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.160][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 06:34:51.161][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.162][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 06:34:51.163][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:51.164][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 06:34:51.165][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 06:34:51.165][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 06:34:51.166][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:51.167][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-13 06:34:51.168][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 06:34:51.169][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.173][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 06:34:51.174][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.175][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 06:34:51.176][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:51.177][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:51.177][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 06:34:51.178][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 06:34:51.179][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 06:34:51.180][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 06:34:51.181][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.182][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 06:34:51.183][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 06:34:51.184][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 06:34:51.184][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 06:34:51.186][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 06:34:51.187][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.187][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[2022-01-13 06:34:51.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.211][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[2022-01-13 06:34:51.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.215][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[2022-01-13 06:34:51.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.219][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[2022-01-13 06:34:51.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.223][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[2022-01-13 06:34:51.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.227][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[2022-01-13 06:34:51.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.231][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[2022-01-13 06:34:51.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.236][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[2022-01-13 06:34:51.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 06:34:51.256][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-13 06:34:51.258][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-13 06:34:51.259][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-13 06:34:51.261][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-13 06:34:51.262][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 06:34:51.263][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 06:34:51.265][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-13 06:34:51.266][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-13 06:34:51.268][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-13 06:34:51.269][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 06:34:51.271][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 06:34:51.272][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-13 06:34:51.273][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-13 06:34:51.275][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-13 06:34:51.276][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-13 06:34:51.278][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 06:34:51.279][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-13 06:34:51.280][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-13 06:34:51.282][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 06:34:51.283][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-13 06:34:51.285][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-13 06:34:51.286][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-13 06:34:51.287][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-13 06:34:51.289][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-13 06:34:51.290][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-13 06:34:51.291][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-13 06:34:51.293][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-13 06:34:51.294][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-13 06:34:51.295][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-13 06:34:51.297][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-13 06:34:51.298][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-13 06:34:51.299][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-13 06:34:51.306][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-13 06:34:51.308][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-13 06:34:51.310][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-13 06:34:51.311][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-13 06:34:51.312][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-13 06:34:51.313][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-13 06:34:51.315][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-13 06:34:51.316][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-13 06:34:51.317][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-13 06:34:51.319][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-13 06:34:51.320][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-13 06:34:51.321][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-13 06:34:51.323][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-13 06:34:51.324][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-13 06:34:51.325][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-13 06:34:51.326][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-13 06:34:51.328][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-13 06:34:51.329][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-13 06:34:51.330][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-13 06:34:51.332][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-13 06:34:51.333][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-13 06:34:51.334][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-13 06:34:51.336][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-13 06:34:51.337][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-13 06:34:51.338][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-13 06:34:51.340][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-13 06:34:51.341][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-13 06:34:51.342][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-13 06:34:51.343][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-13 06:34:51.345][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-13 06:34:51.346][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-13 06:34:51.347][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-13 06:34:51.349][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-13 06:34:51.350][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-13 06:34:51.352][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 06:34:51.353][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 06:34:51.354][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-13 06:34:51.356][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-13 06:34:51.357][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-13 06:34:51.358][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-13 06:34:51.360][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-13 06:34:51.361][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-13 06:34:51.362][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-13 06:34:51.364][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-13 06:34:51.365][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-13 06:34:51.366][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-13 06:34:51.368][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-13 06:34:51.369][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-13 06:34:51.370][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-13 06:34:51.372][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-13 06:34:51.373][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-13 06:34:51.375][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-13 06:34:51.376][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-13 06:34:51.377][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 06:34:51.378][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.379][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.380][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.DEBUG[2022-01-13 06:34:51.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:51.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:51.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.387][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[2022-01-13 06:34:51.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:51.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:51.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.393][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[2022-01-13 06:34:51.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:51.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:51.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.399][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[2022-01-13 06:34:51.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:51.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:51.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.404][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[2022-01-13 06:34:51.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:51.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:51.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.410][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[2022-01-13 06:34:51.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:51.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:51.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.416][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[2022-01-13 06:34:51.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 06:34:51.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 06:34:51.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 06:34:51.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 06:34:51.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 06:34:51.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 06:34:51.422][FUN] Functions in