| Back to Build/check report for BioC 3.17: simplified long |
|
This page was generated on 2023-03-27 05:50:30 -0000 (Mon, 27 Mar 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences" | 6083 |
| 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 | ||||
|
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? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 193/2195 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.5.0 (landing page) Pierrick Roger
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
| Package: biodbChebi |
| Version: 1.5.0 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings biodbChebi_1.5.0.tar.gz |
| StartedAt: 2023-03-24 21:54:31 -0000 (Fri, 24 Mar 2023) |
| EndedAt: 2023-03-24 21:57:18 -0000 (Fri, 24 Mar 2023) |
| EllapsedTime: 166.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings biodbChebi_1.5.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2023-03-12 r83975)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.2 LTS
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.5.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking 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
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
ChebiConn 3.886 0.642 11.547
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
‘biodbChebi.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library’ * installing *source* package ‘biodbChebi’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biodbChebi)
biodbChebi.Rcheck/tests/testthat.Rout
R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2023-03-24 21:55:31.522][biodb::testContext]
biodb.INFO [2023-03-24 21:55:31.524][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:55:31.526][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-03-24 21:55:31.527][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:55:31.528][biodb::testContext]
biodb.INFO [2023-03-24 21:55:31.550][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:55:31.553][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-03-24 21:55:31.563][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:55:31.565][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-03-24 21:55:31.566][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-03-24 21:55:31.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.572][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-03-24 21:55:31.599][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-03-24 21:55:31.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.604][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-03-24 21:55:31.606][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-03-24 21:55:31.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.611][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-03-24 21:55:31.612][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-03-24 21:55:31.614][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-03-24 21:55:31.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.618][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[2023-03-24 21:55:31.619][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-03-24 21:55:31.621][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-03-24 21:55:31.622][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-03-24 21:55:31.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.627][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-03-24 21:55:31.629][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-03-24 21:55:31.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.634][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-03-24 21:55:31.635][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-03-24 21:55:31.637][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-03-24 21:55:31.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.642][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-03-24 21:55:31.644][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-03-24 21:55:31.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.649][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-03-24 21:55:31.650][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-03-24 21:55:31.652][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-03-24 21:55:31.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.657][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:55:31.658][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-03-24 21:55:31.660][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-03-24 21:55:31.661][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-03-24 21:55:31.663][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-03-24 21:55:31.664][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-03-24 21:55:31.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.668][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[2023-03-24 21:55:31.669][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-03-24 21:55:31.671][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-03-24 21:55:31.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.676][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-03-24 21:55:31.677][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-03-24 21:55:31.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.681][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.DEBUG[2023-03-24 21:55:31.683][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-03-24 21:55:31.684][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-03-24 21:55:31.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.689][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-03-24 21:55:31.691][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-03-24 21:55:31.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.696][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-03-24 21:55:31.698][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-03-24 21:55:31.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.703][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:55:31.704][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-03-24 21:55:31.710][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-03-24 21:55:31.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.715][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-03-24 21:55:31.717][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-03-24 21:55:31.718][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-03-24 21:55:31.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.727][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-03-24 21:55:31.774][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:31.807][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-03-24 21:55:31.809][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.810][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:55:31.811][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.813][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:55:31.814][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:31.815][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:55:31.816][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:55:31.818][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:55:31.819][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.820][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-03-24 21:55:31.822][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:55:31.823][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.824][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.825][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:55:31.825][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:55:31.825][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:55:31.825][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:55:31.825][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:55:31.827][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:55:31.828][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:55:31.829][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:55:31.830][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:55:31.832][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:55:31.833][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:55:31.834][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:55:31.835][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.837][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:55:31.838][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:55:31.839][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:31.840][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.842][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-03-24 21:55:31.844][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:31.845][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:55:31.847][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.848][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:55:31.849][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.850][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:55:31.852][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:31.853][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:55:31.854][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:55:31.856][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:55:31.857][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.858][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-03-24 21:55:31.860][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:55:31.861][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.862][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.864][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:55:31.864][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:55:31.864][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:55:31.864][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:55:31.864][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:55:31.865][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:55:31.866][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:55:31.867][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:55:31.869][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:55:31.870][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:55:31.871][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:55:31.872][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:55:31.874][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.875][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:55:31.876][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:55:31.877][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:31.879][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.880][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-03-24 21:55:31.883][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.884][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-03-24 21:55:31.885][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.886][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:55:31.888][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.889][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:55:31.890][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:31.892][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:55:31.893][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:55:31.894][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:55:31.896][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:31.897][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-03-24 21:55:31.898][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:55:31.900][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.901][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.902][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.904][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:55:31.905][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:55:31.906][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:55:31.907][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:55:31.909][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:55:31.910][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:55:31.911][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:55:31.912][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.914][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:55:31.915][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:55:31.916][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:31.917][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.919][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-03-24 21:55:31.921][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.923][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:55:31.924][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.925][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:55:31.927][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.928][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:55:31.929][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:31.930][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:55:31.932][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:55:31.933][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:55:31.935][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:31.936][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-03-24 21:55:31.937][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:55:31.939][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.940][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:31.941][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.943][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:55:31.944][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:55:31.945][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:55:31.946][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:55:31.948][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:55:31.949][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:55:31.950][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:55:31.951][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.953][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:55:31.954][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:55:31.955][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:31.956][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:55:31.962][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:55:31.963][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:31.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:31.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:31.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:31.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:31.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:31.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:31.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:31.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:31.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:31.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:31.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:31.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:31.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:31.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:31.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.011][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.DEBUG[2023-03-24 21:55:32.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.037][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[2023-03-24 21:55:32.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.059][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[2023-03-24 21:55:32.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.073][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-03-24 21:55:32.080][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-03-24 21:55:32.082][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-03-24 21:55:32.084][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-03-24 21:55:32.085][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-03-24 21:55:32.087][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-03-24 21:55:32.089][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-03-24 21:55:32.091][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-03-24 21:55:32.093][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-03-24 21:55:32.094][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-03-24 21:55:32.096][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:55:32.098][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-03-24 21:55:32.100][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-03-24 21:55:32.102][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-03-24 21:55:32.104][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-03-24 21:55:32.105][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-03-24 21:55:32.107][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-03-24 21:55:32.109][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-03-24 21:55:32.111][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-03-24 21:55:32.113][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-03-24 21:55:32.115][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-03-24 21:55:32.116][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-03-24 21:55:32.118][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-03-24 21:55:32.120][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-03-24 21:55:32.122][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-03-24 21:55:32.123][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-03-24 21:55:32.125][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-03-24 21:55:32.127][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-03-24 21:55:32.137][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-03-24 21:55:32.139][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-03-24 21:55:32.141][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-03-24 21:55:32.142][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-03-24 21:55:32.144][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-03-24 21:55:32.146][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-03-24 21:55:32.148][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-03-24 21:55:32.150][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-03-24 21:55:32.151][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-03-24 21:55:32.153][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-03-24 21:55:32.155][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-03-24 21:55:32.157][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-03-24 21:55:32.159][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-03-24 21:55:32.161][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-03-24 21:55:32.163][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-03-24 21:55:32.165][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-03-24 21:55:32.166][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-03-24 21:55:32.168][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-03-24 21:55:32.170][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-03-24 21:55:32.172][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-03-24 21:55:32.174][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-03-24 21:55:32.176][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-03-24 21:55:32.177][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-03-24 21:55:32.179][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-03-24 21:55:32.181][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-03-24 21:55:32.183][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-03-24 21:55:32.185][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-03-24 21:55:32.186][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-03-24 21:55:32.188][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-03-24 21:55:32.190][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-03-24 21:55:32.192][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-03-24 21:55:32.194][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-03-24 21:55:32.196][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-03-24 21:55:32.197][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-03-24 21:55:32.199][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-03-24 21:55:32.201][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-03-24 21:55:32.203][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-03-24 21:55:32.204][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-03-24 21:55:32.206][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-03-24 21:55:32.208][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-03-24 21:55:32.210][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-03-24 21:55:32.212][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-03-24 21:55:32.213][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-03-24 21:55:32.215][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-03-24 21:55:32.217][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-03-24 21:55:32.219][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-03-24 21:55:32.220][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-03-24 21:55:32.222][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-03-24 21:55:32.224][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-03-24 21:55:32.226][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-03-24 21:55:32.228][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-03-24 21:55:32.229][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-03-24 21:55:32.231][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-03-24 21:55:32.233][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-03-24 21:55:32.235][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-03-24 21:55:32.242][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-03-24 21:55:32.244][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:55:32.248][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:55:32.250][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.252][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.328][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[2023-03-24 21:55:32.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:32.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:55:32.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.393][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[2023-03-24 21:55:32.395][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-03-24 21:55:32.407][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-03-24 21:55:32.410][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:32.411][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-03-24 21:55:32.413][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:32.414][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:55:32.415][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:32.416][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:55:32.418][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:32.419][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-03-24 21:55:32.420][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-03-24 21:55:32.422][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:55:32.423][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:32.424][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-03-24 21:55:32.426][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:55:32.427][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-03-24 21:55:32.427][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-03-24 21:55:32.427][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-03-24 21:55:32.427][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-03-24 21:55:32.427][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-03-24 21:55:32.427][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-03-24 21:55:32.427][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-03-24 21:55:32.427][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-03-24 21:55:32.427][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-03-24 21:55:32.427][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-03-24 21:55:32.427][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-03-24 21:55:32.428][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-03-24 21:55:32.430][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:55:32.430][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:55:32.430][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:55:32.431][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-03-24 21:55:32.432][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:55:32.433][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:55:32.435][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:55:32.436][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:55:32.437][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:55:32.438][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:55:32.439][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-03-24 21:55:32.439][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-03-24 21:55:32.441][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:55:32.442][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:55:32.443][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-03-24 21:55:32.444][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-03-24 21:55:32.444][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-03-24 21:55:32.460][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-03-24 21:55:32.462][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:55:32.464][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-03-24 21:55:32.466][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-03-24 21:55:32.468][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-03-24 21:55:32.470][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-03-24 21:55:32.503][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-03-24 21:55:32.505][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-03-24 21:55:32.511][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-03-24 21:55:32.516][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-03-24 21:55:32.522][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:55:32.523][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:55:32.525][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-03-24 21:55:32.526][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-03-24 21:55:32.547][biodb::testThat]
biodb.INFO [2023-03-24 21:55:32.548][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2023-03-24 21:55:32.550][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:55:32.551][biodb::testThat]
biodb.TRACE[2023-03-24 21:55:32.557][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2023-03-24 21:55:32.562][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:32.567][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:32.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:32.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:32.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:32.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:32.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:32.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:32.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:32.625][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:32.626][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:32.628][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.629][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:32.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:32.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.657][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:32.658][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:32.660][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.661][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.697][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:32.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:32.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.706][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:32.707][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:32.709][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.710][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.712][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:32.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:32.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.720][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:32.722][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:32.723][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.725][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.726][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:32.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:32.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.735][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:32.737][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:32.738][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.739][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.741][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:32.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:32.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.750][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:32.752][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:32.753][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.754][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.756][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:32.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:32.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.766][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:32.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:32.769][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.770][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.772][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:32.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:32.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.781][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:32.783][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:32.784][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.785][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:32.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:32.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.796][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:32.798][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:32.799][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.801][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.803][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:32.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:32.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.812][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:32.813][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:32.814][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.816][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.817][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:32.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:32.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.841][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:32.842][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:32.843][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.845][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.846][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:32.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:32.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:32.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:32.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:32.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:32.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:32.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:32.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:32.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:32.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:32.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:32.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:32.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:32.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:32.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:32.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:32.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:32.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:32.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:32.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:32.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:32.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:32.954][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2023-03-24 21:55:32.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:32.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:32.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:32.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:32.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:32.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:32.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.022][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-03-24 21:55:33.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-03-24 21:55:33.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.028][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-03-24 21:55:33.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-03-24 21:55:33.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.033][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-03-24 21:55:33.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-03-24 21:55:33.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.038][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-03-24 21:55:33.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-03-24 21:55:33.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.192][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.193][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.194][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.196][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.227][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.229][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.230][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.231][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:33.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.247][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:33.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:33.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.252][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:33.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:33.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.257][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:33.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:33.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.262][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:33.263][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:33.265][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.266][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.267][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:33.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:33.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.281][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:33.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:33.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.287][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:33.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:33.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.292][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:33.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:33.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.297][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:33.298][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:33.300][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.301][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.302][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:33.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:33.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.333][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.334][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.336][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.337][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:33.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:33.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:33.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:33.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:33.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:33.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.369][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:33.371][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:33.372][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.373][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:33.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:33.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.389][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:33.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:33.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.395][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:33.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:33.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.400][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:33.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:33.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.405][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:33.445][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:33.446][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.448][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.449][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:33.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:33.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.465][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-03-24 21:55:33.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:33.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.470][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-03-24 21:55:33.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:33.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.475][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-03-24 21:55:33.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:33.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.481][ef$get] Asked field names are: n.stars.
biodb.TRACE[2023-03-24 21:55:33.482][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:33.483][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.485][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.486][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-03-24 21:55:33.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:33.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.501][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:33.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:33.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.506][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:33.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:33.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.511][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:33.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:33.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.517][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:33.518][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:33.519][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.521][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.522][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:33.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:33.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.537][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:33.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:33.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.543][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:33.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:33.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.548][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:33.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:33.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.554][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:33.556][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:33.557][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.558][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.560][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:33.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:33.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.575][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.581][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.586][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.591][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.592][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.593][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.594][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.596][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.610][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:33.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:33.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:33.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:33.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:33.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:33.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.626][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:33.627][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:33.629][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.630][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:33.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:33.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.646][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.648][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.649][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.650][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.658][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:33.659][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:33.660][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.662][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.669][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:33.671][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:33.672][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.673][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.681][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:33.682][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:33.684][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.685][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.693][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.694][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:33.696][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.697][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.704][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:33.706][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:33.707][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.709][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.716][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.718][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:33.719][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.720][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.728][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:33.729][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:33.731][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.732][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.747][ef$get] Asked field names are: n.stars.
biodb.TRACE[2023-03-24 21:55:33.749][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:33.750][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.751][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.759][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:33.760][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:33.761][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.763][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.770][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:33.772][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:33.773][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.774][ef$get] fields variable is a list.
biodb.INFO [2023-03-24 21:55:33.784][biodb::testThat]
biodb.INFO [2023-03-24 21:55:33.787][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-03-24 21:55:33.788][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:55:33.790][biodb::testThat]
biodb.DEBUG[2023-03-24 21:55:33.810][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2023-03-24 21:55:33.820][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:33.834][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2023-03-24 21:55:33.838][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:33.842][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2023-03-24 21:55:33.843][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:33.915][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:33.919][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:33.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:33.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:33.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:33.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:33.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:33.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:33.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:33.950][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.952][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.953][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.954][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:33.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:33.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.988][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:33.989][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:33.990][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.992][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:33.994][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:33.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:33.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:33.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.003][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:34.004][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:34.006][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.007][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.008][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:34.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:34.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.017][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:34.018][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:34.020][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.021][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.022][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:34.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:34.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.031][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:34.032][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:34.034][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.035][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:34.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:34.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.045][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:34.046][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:34.048][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.049][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.050][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:34.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:34.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.059][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:34.060][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:34.062][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.063][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.075][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:34.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:34.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.084][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:34.085][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:34.086][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.088][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:34.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:34.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.098][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:34.100][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:34.101][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.102][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.104][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:34.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:34.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.113][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:34.114][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:34.115][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.117][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.118][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:34.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:34.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.127][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:34.129][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:34.130][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.131][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.133][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:34.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:34.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:34.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:34.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:34.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:34.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:34.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:34.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:34.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:34.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:34.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:34.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:34.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:34.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:34.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:34.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:34.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:34.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:34.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:34.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:34.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:34.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:34.200][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2023-03-24 21:55:34.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-03-24 21:55:34.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-03-24 21:55:34.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-03-24 21:55:34.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-03-24 21:55:34.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-03-24 21:55:34.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-03-24 21:55:34.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-03-24 21:55:34.230][biodb::testThat]
biodb.INFO [2023-03-24 21:55:34.231][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2023-03-24 21:55:34.232][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:55:34.234][biodb::testThat]
biodb.TRACE[2023-03-24 21:55:34.237][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:34.239][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:34.240][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.241][ef$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:34.245][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2023-03-24 21:55:34.282][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:34.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:34.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.287][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:34.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:34.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.292][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:34.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:34.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:34.300][function(conn, opt)] With value "squalene".
biodb.DEBUG[2023-03-24 21:55:34.316][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-03-24 21:55:34.356][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:55:34.386][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-03-24 21:55:34.388][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:34.392][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-03-24 21:55:34.433][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:55:34.445][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:55:34.447][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-03-24 21:55:34.448][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:34.451][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-03-24 21:55:34.458][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2023-03-24 21:55:34.480][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:34.482][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:34.484][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.485][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.486][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:34.488][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:34.489][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.490][ef$get] fields variable is a list.
biodb.INFO [2023-03-24 21:55:34.494][biodb::testThat]
biodb.INFO [2023-03-24 21:55:34.495][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2023-03-24 21:55:34.496][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:55:34.497][biodb::testThat]
biodb.TRACE[2023-03-24 21:55:34.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:34.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:34.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.566][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:34.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:34.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.572][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:34.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:34.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:34.668][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:55:34.684][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:55:34.685][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-03-24 21:55:34.687][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:34.690][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2023-03-24 21:55:34.731][biodb::testThat]
biodb.INFO [2023-03-24 21:55:34.733][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2023-03-24 21:55:34.734][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:55:34.735][biodb::testThat]
biodb.TRACE[2023-03-24 21:55:34.769][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:34.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:34.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.775][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:34.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:34.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:34.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:34.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:34.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:34.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:34.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:34.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:34.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:34.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.801][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-03-24 21:55:34.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-03-24 21:55:34.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.806][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-03-24 21:55:34.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-03-24 21:55:34.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.811][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-03-24 21:55:34.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-03-24 21:55:34.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.817][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-03-24 21:55:34.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-03-24 21:55:34.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.849][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:34.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:34.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.854][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:34.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:34.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:34.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:34.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:34.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:34.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:34.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:34.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:34.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:34.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.880][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-03-24 21:55:34.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-03-24 21:55:34.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.885][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-03-24 21:55:34.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-03-24 21:55:34.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.890][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-03-24 21:55:34.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-03-24 21:55:34.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:34.896][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-03-24 21:55:34.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-03-24 21:55:34.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:34.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-03-24 21:55:34.905][biodb::testThat]
biodb.INFO [2023-03-24 21:55:34.906][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-03-24 21:55:34.907][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:55:34.909][biodb::testThat]
biodb.INFO [2023-03-24 21:55:34.915][biodb::testThat]
biodb.INFO [2023-03-24 21:55:34.916][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-03-24 21:55:34.918][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:55:34.919][biodb::testThat]
biodb.INFO [2023-03-24 21:55:34.926][biodb::testThat]
biodb.INFO [2023-03-24 21:55:34.927][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2023-03-24 21:55:34.928][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:55:34.929][biodb::testThat]
biodb.DEBUG[2023-03-24 21:55:34.934][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2023-03-24 21:55:36.916][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2023-03-24 21:55:38.912][biodb::testThat]
biodb.INFO [2023-03-24 21:55:38.917][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2023-03-24 21:55:38.918][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:55:38.919][biodb::testThat]
biodb.DEBUG[2023-03-24 21:55:47.539][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2023-03-24 21:55:48.405][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:48.407][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:48.408][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:48.410][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:48.412][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:48.413][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:48.414][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:48.416][ef$get] fields variable is a list.
biodb.INFO [2023-03-24 21:55:48.419][biodb::testThat]
biodb.INFO [2023-03-24 21:55:48.420][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2023-03-24 21:55:48.422][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:55:48.423][biodb::testThat]
biodb.TRACE[2023-03-24 21:55:48.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:48.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:48.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:48.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:48.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:48.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:48.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:48.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:48.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:48.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:48.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:48.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:48.648][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:55:48.657][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:55:48.660][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-03-24 21:55:48.662][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:48.666][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-03-24 21:55:48.782][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:55:48.786][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:55:48.787][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-03-24 21:55:48.789][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:48.791][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2023-03-24 21:55:48.812][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:55:48.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:55:48.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:48.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:48.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:48.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:48.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:48.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:48.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:48.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:48.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:48.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:48.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:48.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:48.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:48.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:48.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:48.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:48.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:48.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:48.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:48.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:48.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:48.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:48.912][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:55:48.917][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:55:48.919][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-03-24 21:55:48.920][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:48.922][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-03-24 21:55:48.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:48.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:48.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:48.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:48.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:48.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:48.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:48.941][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2023-03-24 21:55:49.002][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:49.004][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2023-03-24 21:55:49.006][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-03-24 21:55:49.007][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-03-24 21:55:49.008][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:49.010][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-03-24 21:55:49.011][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2023-03-24 21:55:49.012][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2023-03-24 21:55:49.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:49.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:49.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:49.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:49.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:49.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:49.029][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.DEBUG[2023-03-24 21:55:49.031][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2023-03-24 21:55:49.035][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-03-24 21:55:49.036][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-03-24 21:55:49.037][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2023-03-24 21:55:49.869][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2023-03-24 21:55:50.712][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-03-24 21:55:50.722][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2023-03-24 21:55:50.753][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2023-03-24 21:55:50.767][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2023-03-24 21:55:50.772][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2023-03-24 21:55:50.797][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:50.799][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:50.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:50.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:50.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:50.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:50.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:50.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:50.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:50.819][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:50.820][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:50.822][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.823][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:50.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:50.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.834][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:50.835][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:50.837][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.838][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.840][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:50.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:50.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.849][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:50.850][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:50.851][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.853][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.855][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:50.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:50.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.864][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:50.866][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:50.867][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.868][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.870][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:50.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:50.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.879][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:50.881][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:50.882][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.884][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.885][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:50.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:50.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.895][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:50.896][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:50.897][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.899][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.912][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:50.914][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:50.915][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.916][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.918][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:50.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:50.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.927][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:50.929][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:50.930][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.931][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:50.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:50.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.942][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:50.944][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:50.945][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.946][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.948][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:50.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:50.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.957][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:50.959][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:50.960][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.961][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.963][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:50.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:50.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.972][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:50.974][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:50.975][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.976][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.978][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:50.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:50.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:50.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:50.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:50.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:50.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:50.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:50.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:51.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:51.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:51.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:51.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:51.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:51.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:51.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:51.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:51.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:51.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:51.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:51.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:51.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:51.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:51.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:51.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:51.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:51.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:51.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:51.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:51.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:51.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:51.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:51.047][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2023-03-24 21:55:51.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:51.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:51.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:51.078][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:55:51.082][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:55:51.084][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-03-24 21:55:51.086][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:51.088][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-03-24 21:55:51.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:51.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:51.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:51.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:51.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:51.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:51.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:51.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:51.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:51.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:51.148][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:55:51.152][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:55:51.154][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-03-24 21:55:51.155][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:51.158][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-03-24 21:55:51.212][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:55:51.216][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:55:51.218][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-03-24 21:55:51.219][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:51.221][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-03-24 21:55:51.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:51.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:51.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:51.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:51.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:51.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:51.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:51.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:51.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:51.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:51.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:51.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:51.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:51.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:51.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:51.284][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:51.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:51.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:51.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:51.290][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2023-03-24 21:55:51.291][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:51.293][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2023-03-24 21:55:51.295][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-03-24 21:55:51.296][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-03-24 21:55:51.298][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:51.299][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-03-24 21:55:51.300][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2023-03-24 21:55:51.302][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2023-03-24 21:55:51.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:51.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:51.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:51.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:51.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:51.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:51.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:51.335][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2023-03-24 21:55:51.356][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-03-24 21:55:51.357][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-03-24 21:55:51.385][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2023-03-24 21:55:52.208][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2023-03-24 21:55:53.051][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-03-24 21:55:53.062][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2023-03-24 21:55:53.078][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2023-03-24 21:55:53.092][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2023-03-24 21:55:53.098][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2023-03-24 21:55:53.126][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:53.128][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:53.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:53.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:53.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:53.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:53.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:53.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:53.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:53.150][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:53.152][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:53.153][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.154][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:53.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:53.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.166][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:53.167][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:53.169][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.170][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.172][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:53.174][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:53.175][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.176][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.178][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:53.180][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:53.182][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.183][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.185][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:53.186][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:53.188][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.189][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.191][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:53.192][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:53.194][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.195][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.197][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:53.198][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:53.200][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.201][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.203][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:53.204][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:53.206][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.207][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.209][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:53.210][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:53.212][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.213][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.215][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:53.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:53.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.242][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:53.244][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:53.245][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.247][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.249][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:53.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:53.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.258][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:53.260][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:53.261][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.262][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:53.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:53.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:53.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:53.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:53.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:53.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:53.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:53.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:53.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:53.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:53.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:53.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:53.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:53.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:53.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:53.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:53.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:53.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:53.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:53.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:53.324][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2023-03-24 21:55:53.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:53.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:53.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:53.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:53.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:53.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:53.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:53.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:53.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:53.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:53.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:53.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:53.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:53.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:53.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:53.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:53.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:53.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:53.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:53.367][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[2023-03-24 21:55:53.368][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2023-03-24 21:55:53.370][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:53.372][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2023-03-24 21:55:53.373][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-03-24 21:55:53.375][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-03-24 21:55:53.376][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:53.378][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-03-24 21:55:53.379][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2023-03-24 21:55:53.380][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2023-03-24 21:55:53.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:53.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:53.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:53.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:53.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:53.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:53.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:53.399][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2023-03-24 21:55:53.403][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-03-24 21:55:53.404][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-03-24 21:55:53.406][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2023-03-24 21:55:54.365][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2023-03-24 21:55:55.271][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-03-24 21:55:55.291][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2023-03-24 21:55:55.305][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2023-03-24 21:55:55.318][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2023-03-24 21:55:55.323][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2023-03-24 21:55:55.347][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:55.349][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:55.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:55.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:55.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:55.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:55.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:55.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:55.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:55.368][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.369][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.371][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.372][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.382][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:55.384][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:55.385][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.386][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.388][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:55.389][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:55.391][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.392][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.394][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:55.395][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:55.397][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.398][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.399][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:55.401][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:55.402][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.403][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.405][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:55.406][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:55.408][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.409][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.411][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:55.412][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.413][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.415][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.416][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:55.418][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:55.419][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.420][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.422][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:55.423][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:55.425][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.426][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.428][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:55.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:55.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.437][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:55.439][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:55.440][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.441][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.443][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:55.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:55.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.452][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:55.453][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:55.454][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.456][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:55.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:55.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:55.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:55.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:55.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:55.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:55.515][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2023-03-24 21:55:55.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:55.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:55.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:55.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:55.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:55.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:55.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:55.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:55.567][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2023-03-24 21:55:55.568][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:55.570][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2023-03-24 21:55:55.572][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:55.574][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2023-03-24 21:55:55.576][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:55.600][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:55.602][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:55.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:55.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:55.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:55.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:55.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:55.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:55.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:55.621][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.622][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.624][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.625][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.636][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:55.637][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:55.638][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.640][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.641][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:55.643][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:55.644][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.645][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.647][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:55.649][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:55.650][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.651][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.653][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:55.654][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:55.656][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.657][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.659][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:55.660][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:55.661][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.663][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.664][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:55.666][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.667][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.668][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.670][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:55.671][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:55.673][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.674][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.676][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:55.677][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:55.678][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.680][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.682][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:55.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:55.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.691][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:55.692][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:55.694][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.695][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.697][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:55.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:55.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.705][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:55.707][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:55.708][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.709][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:55.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:55.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:55.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:55.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:55.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:55.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:55.777][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2023-03-24 21:55:55.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:55.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:55.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:55.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:55.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:55.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:55.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:55.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:55.821][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2023-03-24 21:55:55.822][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:55.825][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2023-03-24 21:55:55.826][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:55.829][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2023-03-24 21:55:55.830][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:55.855][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:55.856][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:55.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:55.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:55.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:55.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:55.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:55.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:55.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:55.876][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.877][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.878][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.880][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:55.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:55.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.890][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:55.892][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:55.893][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.894][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.896][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:55.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:55.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.905][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:55.906][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:55.908][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.909][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.911][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:55.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:55.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.920][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:55.921][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:55.923][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.924][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.926][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:55.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:55.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.934][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:55.936][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:55.937][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.938][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:55.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:55.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.949][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:55.950][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:55.952][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.953][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.955][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:55.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:55.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.963][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:55.965][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.966][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.968][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.969][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:55.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:55.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.978][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:55.980][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:55.981][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.982][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:55.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:55.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:55.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:55.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.000][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:56.002][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:56.003][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.005][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:56.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:56.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.016][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:56.017][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:56.018][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.020][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.021][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:56.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:56.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.030][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:56.032][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:56.033][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.034][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.036][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:56.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:56.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:56.103][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2023-03-24 21:55:56.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:56.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:56.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:56.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:56.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:56.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:56.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:56.134][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[2023-03-24 21:55:56.136][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2023-03-24 21:55:56.137][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:56.139][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2023-03-24 21:55:56.141][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:56.143][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2023-03-24 21:55:56.145][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:56.169][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:56.171][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:56.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:56.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:56.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:56.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:56.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:56.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:56.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:56.190][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.192][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.193][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.194][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.205][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:56.206][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:56.208][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.209][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.211][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:56.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:56.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.219][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:56.221][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:56.222][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.223][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.225][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:56.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:56.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.242][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:56.244][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:56.245][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.246][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.248][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:56.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:56.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.257][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:56.258][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:56.259][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.261][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.262][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:56.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:56.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.271][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:56.273][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:56.274][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.275][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.277][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:56.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:56.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.286][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:56.287][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.288][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.290][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.291][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:56.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.300][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:56.302][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:56.303][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.304][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:56.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:56.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.315][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:56.316][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:56.317][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.319][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.321][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:56.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:56.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.329][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:56.331][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:56.332][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.333][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.335][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:56.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:56.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.344][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:56.345][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:56.347][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.348][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.350][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:56.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:56.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:56.416][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2023-03-24 21:55:56.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:56.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:56.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:56.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:56.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:56.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:56.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:56.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:56.449][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2023-03-24 21:55:56.450][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:56.453][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2023-03-24 21:55:56.456][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:56.458][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2023-03-24 21:55:56.460][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:56.492][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:56.493][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:56.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:56.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:56.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:56.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:56.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:56.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:56.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:56.513][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.514][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.515][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.517][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.527][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:56.529][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:56.530][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.531][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.533][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:56.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:56.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.542][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:56.543][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:56.545][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.546][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.547][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:56.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:56.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.556][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:56.558][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:56.559][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.560][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.562][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:56.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:56.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.570][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:56.572][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:56.573][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.574][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:56.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:56.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.585][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:56.586][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:56.588][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.589][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.590][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:56.592][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.593][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.594][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.596][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:56.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.605][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:56.606][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:56.608][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.609][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:56.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:56.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.619][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:56.621][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:56.622][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.623][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.625][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:56.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:56.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.634][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:56.635][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:56.636][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.638][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.639][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:56.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:56.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.648][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:56.649][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:56.651][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.652][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.653][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:56.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:56.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:56.728][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2023-03-24 21:55:56.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:56.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:56.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:56.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:56.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:56.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:56.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:56.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:56.761][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2023-03-24 21:55:56.762][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:56.764][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2023-03-24 21:55:56.766][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:56.768][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2023-03-24 21:55:56.770][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:56.794][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:56.796][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:56.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:56.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:56.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:56.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:56.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:56.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:56.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:56.815][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.817][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.818][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.819][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.830][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:56.831][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:56.833][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.834][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.836][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:56.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:56.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.844][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:56.846][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:56.847][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.849][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.850][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:56.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:56.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.859][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:56.861][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:56.862][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.863][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:56.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:56.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.874][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:56.875][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:56.877][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.878][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.880][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:56.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:56.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.889][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:56.890][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:56.891][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.893][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.894][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:56.896][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.897][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.898][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.900][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:56.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:56.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.909][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:56.910][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:56.912][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.913][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:56.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:56.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.924][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:56.925][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:56.926][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.928][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:56.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:56.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.946][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:56.948][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:56.949][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.950][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.952][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:56.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:56.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.961][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:56.962][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:56.964][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.965][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.966][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:56.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:56.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:56.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:56.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:56.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:56.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:56.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:57.032][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2023-03-24 21:55:57.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:57.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:57.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:57.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:57.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:57.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:57.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:57.064][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.DEBUG[2023-03-24 21:55:57.065][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2023-03-24 21:55:57.066][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:57.069][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2023-03-24 21:55:57.070][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:57.073][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2023-03-24 21:55:57.074][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:57.098][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:57.100][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:57.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:57.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:57.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:57.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:57.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:57.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:57.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:57.119][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.120][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.121][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.123][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.133][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:57.134][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:57.136][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.137][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.139][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:57.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:57.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.147][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:57.149][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:57.150][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.152][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.153][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:57.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:57.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.162][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:57.164][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:57.165][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.166][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.168][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:57.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:57.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.217][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:57.218][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:57.220][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.221][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.223][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:57.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:57.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.232][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:57.234][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:57.235][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.236][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.238][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:57.239][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.241][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.242][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.243][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:57.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.252][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:57.254][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:57.255][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.256][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:57.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:57.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.267][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:57.268][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:57.269][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.271][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.272][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:57.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:57.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.281][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:57.282][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:57.284][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.285][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.287][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:57.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:57.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.296][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:57.297][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:57.298][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.299][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.301][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:57.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:57.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:57.367][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2023-03-24 21:55:57.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:57.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:57.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:57.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:57.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:57.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:57.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:57.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:57.399][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2023-03-24 21:55:57.400][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:57.402][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2023-03-24 21:55:57.404][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:57.406][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2023-03-24 21:55:57.408][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:57.431][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:57.433][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:57.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:57.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:57.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:57.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:57.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:57.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:57.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:57.460][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.462][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.463][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.464][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.475][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:57.476][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:57.477][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.479][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.480][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:57.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:57.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.489][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:57.491][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:57.492][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.493][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.495][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:57.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:57.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.504][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:57.505][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:57.507][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.508][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.510][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:57.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:57.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.519][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:57.520][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:57.522][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.523][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:57.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:57.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.533][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:57.535][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:57.536][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.537][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.539][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:57.540][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.542][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.543][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.544][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:57.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.553][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:57.555][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:57.556][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.557][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:57.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:57.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.567][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:57.569][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:57.570][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.571][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:57.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:57.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.582][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:57.583][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:57.584][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.585][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.587][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:57.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:57.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.596][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:57.597][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:57.598][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.600][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.601][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:57.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:57.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:57.666][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2023-03-24 21:55:57.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:57.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:57.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:57.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:57.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:57.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:57.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:57.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:57.707][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2023-03-24 21:55:57.708][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:57.711][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2023-03-24 21:55:57.712][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:57.714][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2023-03-24 21:55:57.716][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:57.740][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:57.742][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:57.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:57.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:57.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:57.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:57.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:57.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:57.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:57.761][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.762][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.764][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.765][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.775][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:57.777][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:57.778][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.779][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.781][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:57.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:57.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.790][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:57.791][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:57.792][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.794][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.795][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:57.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:57.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.804][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:57.806][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:57.807][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.809][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.810][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:57.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:57.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.819][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:57.821][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:57.822][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.824][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.826][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:57.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:57.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.835][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:57.837][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:57.838][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.839][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.841][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:57.843][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.844][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.846][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.847][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:57.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.857][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:57.858][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:57.860][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.861][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:57.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:57.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.871][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:57.872][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:57.874][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.875][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.877][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:57.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:57.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.886][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:57.887][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:57.888][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.889][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.891][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:57.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:57.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.900][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:57.901][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:57.902][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.904][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.905][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:57.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:57.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:57.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:57.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:57.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:57.981][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2023-03-24 21:55:57.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:57.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:57.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:57.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:57.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:58.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:58.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:58.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:58.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:58.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:58.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:58.014][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2023-03-24 21:55:58.015][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:58.018][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2023-03-24 21:55:58.021][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:58.023][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2023-03-24 21:55:58.024][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:58.049][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:58.050][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:58.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:58.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:58.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:58.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:58.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:58.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:58.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:58.070][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.071][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.073][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.074][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.085][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:58.086][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:58.088][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.089][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.091][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:58.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:58.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.100][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:58.101][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:58.102][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.104][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.105][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:58.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:58.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.115][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:58.116][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:58.118][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.119][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.121][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:58.122][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:58.123][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.125][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.126][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:58.128][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:58.129][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.130][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.132][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:58.133][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.135][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.136][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.138][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:58.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.147][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:58.148][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:58.149][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.151][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:58.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:58.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.170][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:58.171][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:58.173][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.174][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.176][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:58.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:58.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.185][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:58.186][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:58.188][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.189][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.191][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:58.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:58.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.199][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:58.201][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:58.202][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.203][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:58.263][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2023-03-24 21:55:58.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:58.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:58.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:58.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:58.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:58.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:58.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:58.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:58.296][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2023-03-24 21:55:58.297][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:58.299][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2023-03-24 21:55:58.302][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:58.305][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2023-03-24 21:55:58.306][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:58.331][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:58.332][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:58.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:58.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:58.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:58.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:58.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:58.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:58.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:58.351][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.353][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.354][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.355][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.366][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:58.367][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:58.368][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.370][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.371][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:58.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:58.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.380][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:58.382][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:58.383][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.384][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.386][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:58.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:58.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.395][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:58.396][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:58.397][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.406][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.408][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:58.410][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:58.411][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.413][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.414][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:58.416][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:58.417][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.418][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.420][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:58.421][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.423][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.424][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.425][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:58.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.434][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:58.436][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:58.437][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.438][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:58.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:58.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.449][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:58.450][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:58.452][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.453][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:58.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:58.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.464][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:58.465][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:58.466][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.468][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.469][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:58.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:58.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.478][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:58.479][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:58.481][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.482][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:58.541][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2023-03-24 21:55:58.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:58.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:58.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:58.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:58.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:58.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:58.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:58.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:58.573][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2023-03-24 21:55:58.575][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:58.577][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2023-03-24 21:55:58.580][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:58.582][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2023-03-24 21:55:58.583][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:58.608][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:58.609][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:58.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:58.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:58.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:58.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:58.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:58.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:58.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:58.628][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.630][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.631][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.632][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.651][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:58.653][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:58.654][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.655][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.657][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:58.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:58.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.666][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:58.667][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:58.669][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.670][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.672][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:58.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:58.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.681][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:58.682][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:58.684][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.685][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.686][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:58.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:58.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.695][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:58.697][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:58.698][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.700][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.701][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:58.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:58.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.710][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:58.712][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:58.713][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.714][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.716][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:58.717][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.719][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.720][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.722][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:58.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.731][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:58.732][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:58.733][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.735][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:58.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:58.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.745][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:58.747][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:58.748][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.749][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.751][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:58.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:58.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.760][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:58.762][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:58.763][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.764][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.766][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:58.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:58.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.775][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:58.776][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:58.778][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.779][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.781][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:58.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:58.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:58.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:58.847][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2023-03-24 21:55:58.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:58.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:58.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:58.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:58.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:58.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:58.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:58.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:58.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:58.888][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2023-03-24 21:55:58.889][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:58.891][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2023-03-24 21:55:58.893][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:58.895][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2023-03-24 21:55:58.897][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:58.921][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:58.923][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:58.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:58.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:58.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:58.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:58.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:58.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:58.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:58.942][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.944][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.945][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.946][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:58.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:58.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.957][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:58.958][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:58.959][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.961][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.962][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:58.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:58.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.971][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:58.973][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:58.974][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.975][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.977][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:58.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:58.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.986][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:58.987][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:58.989][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.990][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:58.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:58.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:58.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:58.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.000][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.002][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.003][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.004][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.015][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:59.016][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:59.018][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.019][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.021][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:59.022][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.023][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.025][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.026][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:59.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.035][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.037][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.038][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.039][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.050][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:59.051][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:59.053][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.054][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:59.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:59.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.065][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:59.066][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:59.068][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.069][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.071][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:59.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:59.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.080][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:59.081][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:59.082][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.084][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.085][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:59.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:59.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:59.162][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2023-03-24 21:55:59.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:59.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:59.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:59.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:59.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:59.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:59.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:59.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:59.195][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2023-03-24 21:55:59.196][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:59.199][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2023-03-24 21:55:59.200][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:59.202][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2023-03-24 21:55:59.204][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:59.229][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:59.230][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:59.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:59.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:59.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:59.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:59.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:59.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:59.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:59.250][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.251][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.252][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.254][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.264][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:59.266][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:59.267][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.269][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.270][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:59.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:59.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.279][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:59.281][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:59.282][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.283][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.285][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:59.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:59.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.294][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:59.295][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:59.297][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.298][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:59.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:59.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.309][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.310][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.312][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.313][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.324][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:59.325][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:59.327][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.328][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.330][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:59.331][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.332][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.334][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.335][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:59.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.344][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.346][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.347][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.349][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.367][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:59.369][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:59.370][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.372][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:59.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:59.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.383][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:59.384][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:59.385][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.387][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.388][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:59.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:59.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.397][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:59.399][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:59.400][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.401][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.403][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:59.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:59.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:59.471][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2023-03-24 21:55:59.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:59.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:59.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:59.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:59.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:59.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:59.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:59.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:59.505][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2023-03-24 21:55:59.506][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:59.508][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2023-03-24 21:55:59.510][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:59.512][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2023-03-24 21:55:59.514][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:59.538][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:59.540][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:59.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:59.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:59.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:59.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:59.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:59.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:59.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:59.560][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.561][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.563][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.564][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.575][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:59.576][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:59.577][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.579][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.581][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:59.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:59.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.589][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:59.591][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:59.592][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.594][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.595][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:59.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:59.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.613][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:59.614][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:59.615][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.617][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:59.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:59.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.627][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.629][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.630][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.632][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.633][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.642][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:59.644][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:59.645][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.646][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.648][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:59.650][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.651][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.652][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.654][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:59.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.663][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.664][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.666][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.667][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.678][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:59.679][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:59.681][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.682][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.684][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:59.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:59.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.693][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:59.694][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:59.696][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.697][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.699][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:55:59.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:55:59.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.707][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:59.709][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:59.710][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.712][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.713][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:55:59.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:55:59.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:55:59.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:59.781][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2023-03-24 21:55:59.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:55:59.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:59.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:59.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:59.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:59.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:59.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:59.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:55:59.815][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2023-03-24 21:55:59.817][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:55:59.819][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2023-03-24 21:55:59.821][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:55:59.823][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2023-03-24 21:55:59.824][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:55:59.857][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:55:59.859][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:55:59.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:55:59.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:55:59.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:55:59.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:55:59.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:55:59.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:55:59.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:55:59.878][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.880][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.881][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.882][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:55:59.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:55:59.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.893][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:59.894][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:59.896][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.897][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.899][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:55:59.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:55:59.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.908][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:59.909][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:59.911][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.912][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.914][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:55:59.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:55:59.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.922][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:59.924][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:59.925][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.927][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.928][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:55:59.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:55:59.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.937][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.939][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.940][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.941][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:55:59.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.952][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:59.953][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:55:59.955][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.956][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.958][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:59.959][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.960][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.962][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.963][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:55:59.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:55:59.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.972][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.974][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.975][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.976][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:55:59.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.987][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:59.988][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:59.990][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.991][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:55:59.993][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:55:59.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:55:59.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:55:59.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.002][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:00.003][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:00.004][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.006][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.007][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:00.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:00.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.016][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:00.018][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:00.019][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.020][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.022][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:00.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:00.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:00.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:00.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:00.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:00.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:00.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:00.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:00.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:00.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:00.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:00.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:00.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:00.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:00.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:00.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:00.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:00.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:00.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:00.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:00.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:00.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.098][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2023-03-24 21:56:00.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.161][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:00.165][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:00.167][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-03-24 21:56:00.169][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:00.171][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-03-24 21:56:00.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.225][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.397][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.410][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.TRACE[2023-03-24 21:56:00.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.579][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.TRACE[2023-03-24 21:56:00.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:00.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:00.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:00.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:00.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:00.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:00.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:00.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:00.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:00.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:00.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:00.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:00.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:00.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:00.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:00.950][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:00.954][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:00.956][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2023-03-24 21:56:00.958][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:00.961][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2023-03-24 21:56:00.965][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:00.969][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:00.970][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2023-03-24 21:56:00.972][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:00.974][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2023-03-24 21:56:00.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:00.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:00.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:00.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:00.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:00.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:00.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:00.993][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2023-03-24 21:56:00.994][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:56:00.996][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2023-03-24 21:56:00.998][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:01.000][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2023-03-24 21:56:01.001][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:56:01.035][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:56:01.037][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:56:01.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:01.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:01.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:01.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:01.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:01.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:01.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:01.057][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.058][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.060][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.061][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.072][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:56:01.073][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:56:01.074][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.076][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.077][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:56:01.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:56:01.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.086][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:01.088][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:01.089][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.090][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.092][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:01.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:01.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.101][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:01.102][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:01.104][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.105][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.107][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:01.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:01.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.116][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:01.117][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:01.118][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.120][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.121][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:01.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:01.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.131][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:01.132][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:01.133][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.135][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.136][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:01.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:01.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.145][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:56:01.147][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:01.148][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.149][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.151][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:56:01.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:01.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.160][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.161][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.163][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.164][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.174][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:01.176][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:01.177][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.178][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.180][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:01.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:01.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.189][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:01.191][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:01.192][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.193][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.195][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:01.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:01.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.204][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:01.205][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:01.207][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.208][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.210][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:01.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:01.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:01.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:01.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:01.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:01.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:01.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:01.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:01.286][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2023-03-24 21:56:01.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:01.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:01.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:01.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:01.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:01.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:01.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:01.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:01.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:01.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:01.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:01.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:01.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:01.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:01.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:01.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:01.353][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2023-03-24 21:56:01.354][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:56:01.356][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2023-03-24 21:56:01.358][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:01.361][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2023-03-24 21:56:01.362][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:56:01.387][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:56:01.389][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:56:01.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:01.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:01.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:01.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:01.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:01.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:01.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:01.408][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.410][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.411][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.412][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.423][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:56:01.424][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:56:01.426][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.427][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.429][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:56:01.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:56:01.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.438][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:01.439][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:01.441][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.442][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.444][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:01.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:01.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.453][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:01.454][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:01.456][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.457][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.459][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:01.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:01.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.468][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:01.469][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:01.470][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.472][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.473][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:01.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:01.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.482][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:01.484][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:01.485][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.486][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.488][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:56:01.489][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:01.499][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.500][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.502][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:56:01.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:01.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.511][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.513][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.514][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.515][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.526][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:01.527][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:01.529][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.530][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.532][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:01.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:01.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.541][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:01.542][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:01.544][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.545][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.547][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:01.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:01.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.556][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:01.557][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:01.559][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.560][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.561][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:01.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:01.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:01.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:01.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:01.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:01.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:01.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:01.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:01.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:01.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:01.629][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2023-03-24 21:56:01.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:01.699][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[2023-03-24 21:56:01.703][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:01.705][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-03-24 21:56:01.706][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:01.708][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-03-24 21:56:01.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:01.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:01.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:01.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:01.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:01.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:01.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:01.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:01.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:01.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:01.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:01.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:01.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:01.785][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:01.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:01.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:01.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:01.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:01.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:01.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:01.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:01.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:01.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:01.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:01.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:01.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:01.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:01.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:01.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:01.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:01.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:01.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:01.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:01.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:01.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:01.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:01.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:01.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:01.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:01.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:01.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:01.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:01.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:01.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:01.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:01.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:01.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:01.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:01.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:01.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:01.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:01.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:01.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:01.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:01.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:01.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:01.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:01.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:01.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.079][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.189][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[2023-03-24 21:56:02.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.343][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.362][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.TRACE[2023-03-24 21:56:02.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.426][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:02.431][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:02.432][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-03-24 21:56:02.434][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:02.436][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-03-24 21:56:02.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.601][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[2023-03-24 21:56:02.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.673][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.831][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.832][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:02.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:02.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:02.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:02.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:02.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:02.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:02.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:02.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:02.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:02.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:02.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:03.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:03.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:03.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:03.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:03.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.120][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-03-24 21:56:03.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-03-24 21:56:03.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-03-24 21:56:03.141][biodb::testThat]
biodb.INFO [2023-03-24 21:56:03.142][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2023-03-24 21:56:03.143][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:03.144][biodb::testThat]
biodb.TRACE[2023-03-24 21:56:03.148][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:03.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:03.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:03.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.208][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[2023-03-24 21:56:03.258][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:03.262][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:03.264][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-03-24 21:56:03.266][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:03.267][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-03-24 21:56:03.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:03.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:03.303][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:03.307][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:03.308][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-03-24 21:56:03.310][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:03.312][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-03-24 21:56:03.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:03.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:03.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:03.348][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:03.352][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:03.353][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-03-24 21:56:03.355][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:03.357][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-03-24 21:56:03.360][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-03-24 21:56:03.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.375][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.TRACE[2023-03-24 21:56:03.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.388][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:03.389][private$selectFields]
biodb.TRACE[2023-03-24 21:56:03.390][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:03.392][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:03.393][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:03.394][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.404][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.405][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.407][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.408][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.410][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.411][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.413][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.414][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:03.415][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:03.417][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.418][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.420][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.421][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.422][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:03.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.452][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-03-24 21:56:03.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:03.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.479][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:03.480][private$selectFields]
biodb.TRACE[2023-03-24 21:56:03.482][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:03.483][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:03.484][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:03.486][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.487][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.488][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.490][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.491][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.492][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.494][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.495][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.496][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:03.498][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:03.499][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.502][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.503][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.504][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:03.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.522][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-03-24 21:56:03.524][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-03-24 21:56:03.525][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-03-24 21:56:03.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:03.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:03.709][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:03.713][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:03.715][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-03-24 21:56:03.717][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:03.719][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-03-24 21:56:03.722][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:03.726][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:03.728][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-03-24 21:56:03.730][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:03.732][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-03-24 21:56:03.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.745][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:03.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:03.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:03.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:03.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:03.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:03.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:03.870][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-03-24 21:56:03.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:03.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.928][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:03.929][private$selectFields]
biodb.TRACE[2023-03-24 21:56:03.931][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:03.932][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:03.933][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:03.934][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.936][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.937][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.938][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.940][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.941][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.942][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.944][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.945][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:03.946][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:03.948][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.949][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.950][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.952][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.953][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:03.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:03.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:03.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:03.971][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-03-24 21:56:03.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:03.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:03.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:03.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:03.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:03.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:03.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:04.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.051][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.053][private$selectFields]
biodb.TRACE[2023-03-24 21:56:04.054][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:04.055][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:04.057][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.058][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.059][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.061][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.062][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.065][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.066][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.067][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.068][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.083][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.084][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.086][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.087][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.088][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.090][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:04.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.108][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-03-24 21:56:04.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:04.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:04.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:04.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:04.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:04.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:04.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:04.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.136][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.137][private$selectFields]
biodb.TRACE[2023-03-24 21:56:04.138][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:04.140][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:04.141][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.142][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.144][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.145][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.146][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.148][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.149][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.150][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.152][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.153][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.154][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.156][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.157][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.158][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.160][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.161][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:04.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.179][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-03-24 21:56:04.180][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-03-24 21:56:04.182][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-03-24 21:56:04.192][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-03-24 21:56:04.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-03-24 21:56:04.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-03-24 21:56:04.199][biodb::testThat]
biodb.INFO [2023-03-24 21:56:04.200][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2023-03-24 21:56:04.202][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:04.203][biodb::testThat]
biodb.TRACE[2023-03-24 21:56:04.207][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:04.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:04.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:04.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:04.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:04.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:04.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:04.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:04.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:04.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:04.316][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:04.320][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:04.322][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-03-24 21:56:04.324][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:04.325][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-03-24 21:56:04.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:04.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:04.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:04.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:04.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:04.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:04.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:04.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:04.361][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:04.365][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:04.366][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-03-24 21:56:04.368][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:04.370][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-03-24 21:56:04.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:04.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:04.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:04.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:04.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:04.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:04.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:04.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:04.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:04.406][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:04.410][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:04.412][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-03-24 21:56:04.413][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:04.415][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-03-24 21:56:04.418][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-03-24 21:56:04.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:04.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:04.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:04.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:04.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:04.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:04.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:04.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.446][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.448][private$selectFields]
biodb.TRACE[2023-03-24 21:56:04.449][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:04.450][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:04.452][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.453][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.454][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.456][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.457][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.458][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.460][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.461][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.462][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.464][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.465][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.466][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.469][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.470][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.472][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:04.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.490][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-03-24 21:56:04.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:04.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:04.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:04.510][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:04.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:04.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:04.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:04.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.527][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.528][private$selectFields]
biodb.TRACE[2023-03-24 21:56:04.529][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:04.531][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:04.532][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.533][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.535][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.536][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.538][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.542][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.543][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.544][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.546][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.547][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.549][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.550][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.551][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.553][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:04.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.571][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-03-24 21:56:04.572][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-03-24 21:56:04.574][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-03-24 21:56:04.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:04.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:04.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:04.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:04.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:04.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:04.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:04.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:04.679][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:04.683][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:04.685][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-03-24 21:56:04.686][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:04.688][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-03-24 21:56:04.692][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:04.696][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:04.698][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-03-24 21:56:04.699][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:04.701][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-03-24 21:56:04.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:04.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:04.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:04.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:04.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:04.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:04.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:04.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:04.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:04.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:04.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:04.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:04.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:04.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:04.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:04.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:04.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:04.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:04.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:04.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:04.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:04.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:04.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:04.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:04.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:04.810][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-03-24 21:56:04.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:04.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:04.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:04.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:04.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:04.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:04.826][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[2023-03-24 21:56:04.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.839][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.840][private$selectFields]
biodb.TRACE[2023-03-24 21:56:04.841][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:04.843][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:04.844][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.845][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.847][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.848][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.849][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.851][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.852][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.853][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.855][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.856][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.857][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.859][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.860][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.862][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.863][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.864][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:04.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.882][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-03-24 21:56:04.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:04.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:04.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:04.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:04.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:04.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:04.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:04.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.910][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.911][private$selectFields]
biodb.TRACE[2023-03-24 21:56:04.913][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:04.914][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:04.915][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.917][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.918][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.920][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.921][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.922][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.924][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.925][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.926][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.928][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.929][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.930][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.932][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.933][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.934][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.936][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:04.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.954][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-03-24 21:56:04.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:04.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:04.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:04.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:04.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:04.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:04.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:04.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:04.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:04.991][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.992][private$selectFields]
biodb.TRACE[2023-03-24 21:56:04.993][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:04.995][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:04.996][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:04.997][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:04.999][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.000][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.001][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.003][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.004][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.005][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.007][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.008][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.010][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.011][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.012][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.014][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.015][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.016][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:05.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.034][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-03-24 21:56:05.036][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-03-24 21:56:05.037][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-03-24 21:56:05.048][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-03-24 21:56:05.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-03-24 21:56:05.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-03-24 21:56:05.055][biodb::testThat]
biodb.INFO [2023-03-24 21:56:05.056][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2023-03-24 21:56:05.057][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:05.058][biodb::testThat]
biodb.TRACE[2023-03-24 21:56:05.063][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-03-24 21:56:05.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-03-24 21:56:05.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:05.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:05.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:05.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:05.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:05.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:05.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:05.115][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[2023-03-24 21:56:05.165][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:05.169][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:05.171][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-03-24 21:56:05.173][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:05.174][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-03-24 21:56:05.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:05.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:05.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:05.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:05.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:05.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:05.191][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[2023-03-24 21:56:05.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:05.219][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:05.223][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:05.225][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-03-24 21:56:05.227][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:05.229][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-03-24 21:56:05.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:05.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:05.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:05.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:05.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:05.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:05.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:05.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:05.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:05.265][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:05.269][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:05.271][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-03-24 21:56:05.273][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:05.275][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-03-24 21:56:05.278][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-03-24 21:56:05.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:05.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:05.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:05.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:05.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:05.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:05.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:05.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.306][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.307][private$selectFields]
biodb.TRACE[2023-03-24 21:56:05.309][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:05.310][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:05.311][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.313][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.314][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.315][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.317][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.318][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.320][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.321][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.322][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.323][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.325][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.326][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.329][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.330][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.332][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:05.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.350][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-03-24 21:56:05.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:05.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:05.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:05.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:05.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:05.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:05.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:05.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.378][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.379][private$selectFields]
biodb.TRACE[2023-03-24 21:56:05.380][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:05.382][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:05.383][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.384][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.386][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.387][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.388][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.390][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.391][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.393][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.394][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.395][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.397][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.398][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.399][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.401][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.402][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.403][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:05.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.422][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-03-24 21:56:05.423][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-03-24 21:56:05.424][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-03-24 21:56:05.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:05.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:05.496][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:05.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:05.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:05.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:05.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:05.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:05.558][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:05.563][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:05.564][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-03-24 21:56:05.566][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:05.568][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-03-24 21:56:05.572][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:05.576][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:05.577][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-03-24 21:56:05.579][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:05.581][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-03-24 21:56:05.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:05.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:05.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:05.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:05.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:05.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:05.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:05.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:05.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:05.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:05.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:05.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:05.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:05.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:05.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:05.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:05.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:05.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:05.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:05.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:05.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:05.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:05.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:05.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:05.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:05.689][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-03-24 21:56:05.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:05.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:05.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:05.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:05.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:05.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:05.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:05.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.718][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.719][private$selectFields]
biodb.TRACE[2023-03-24 21:56:05.721][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:05.722][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:05.723][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.726][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.728][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.729][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.730][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.732][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.733][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.734][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.736][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.737][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.738][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.740][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.741][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.742][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.744][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:05.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.762][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-03-24 21:56:05.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:05.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:05.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:05.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:05.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:05.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:05.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:05.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.790][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.791][private$selectFields]
biodb.TRACE[2023-03-24 21:56:05.793][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:05.794][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:05.795][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.796][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.798][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.799][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.801][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.802][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.803][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.805][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.806][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.807][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.809][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.810][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.812][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.813][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.814][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.816][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:05.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.834][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-03-24 21:56:05.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:05.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:05.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:05.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:05.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:05.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:05.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:05.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.862][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.863][private$selectFields]
biodb.TRACE[2023-03-24 21:56:05.865][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-03-24 21:56:05.866][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-03-24 21:56:05.867][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.869][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.870][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.871][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.873][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.874][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.876][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.877][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.878][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.880][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.881][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-03-24 21:56:05.882][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.884][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.885][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.886][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.888][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-03-24 21:56:05.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:05.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:05.915][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-03-24 21:56:05.916][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-03-24 21:56:05.918][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-03-24 21:56:05.946][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-03-24 21:56:05.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-03-24 21:56:05.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:05.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-03-24 21:56:05.953][biodb::testThat]
biodb.INFO [2023-03-24 21:56:05.954][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2023-03-24 21:56:05.956][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:05.957][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:05.960][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-03-24 21:56:05.961][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:56:05.963][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-03-24 21:56:05.965][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:05.967][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2023-03-24 21:56:05.969][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:56:05.991][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:56:05.992][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:56:05.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:05.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:05.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:06.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:06.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:06.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:06.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:06.011][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.013][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.014][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.015][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.026][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:56:06.028][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:56:06.029][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.030][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.032][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:06.033][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:06.035][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.036][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.038][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:06.039][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:06.041][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.042][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.044][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:06.045][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:06.046][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.048][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.049][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:06.051][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:06.052][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.053][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.055][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:56:06.057][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:06.058][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.059][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.061][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.062][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.064][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.065][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.067][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:06.068][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:06.069][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.071][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.073][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:06.074][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:06.075][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.077][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.078][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:06.080][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:06.081][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.082][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:06.152][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2023-03-24 21:56:06.153][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-03-24 21:56:06.162][biodb::testThat]
biodb.INFO [2023-03-24 21:56:06.163][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-03-24 21:56:06.164][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:06.165][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:06.178][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2023-03-24 21:56:06.179][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2023-03-24 21:56:06.181][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2023-03-24 21:56:06.183][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2023-03-24 21:56:06.185][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2023-03-24 21:56:06.188][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2023-03-24 21:56:06.190][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:56:06.213][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2023-03-24 21:56:06.215][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2023-03-24 21:56:06.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:06.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:06.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:06.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:06.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:06.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:06.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:06.234][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.235][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.237][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.238][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.248][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:56:06.250][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:56:06.251][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.252][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.254][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:06.255][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:06.257][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.258][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.260][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:06.261][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:06.263][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.264][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.265][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:06.267][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:06.268][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.269][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.271][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:06.272][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:06.274][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.275][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.277][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:56:06.278][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:06.279][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.281][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.282][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.284][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.285][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.286][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.288][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:06.289][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:06.291][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.292][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.294][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:06.295][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:06.296][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.298][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.299][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:06.301][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:06.302][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.303][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:06.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:06.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:06.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:06.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:06.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:06.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:06.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:06.372][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.374][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.375][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.376][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.387][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:56:06.388][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:56:06.390][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.391][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.393][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:56:06.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:56:06.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.402][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:06.403][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:06.404][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.406][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.407][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:06.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:06.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.416][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:06.418][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:06.419][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.420][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.422][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:06.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:06.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.431][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:06.432][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:06.434][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.435][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:06.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:06.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.445][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:06.447][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:06.448][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.449][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.451][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:06.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:06.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.460][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:56:06.461][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:06.462][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.464][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.465][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:56:06.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:06.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.474][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.475][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.477][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.478][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.488][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:06.490][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:06.491][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.492][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.494][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:06.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:06.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.503][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:06.504][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:06.506][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.507][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.509][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:06.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:06.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.517][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:06.519][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:06.520][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.521][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.523][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:06.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:06.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:06.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:06.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:06.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:06.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:06.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:06.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:06.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:06.599][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.600][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.602][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.603][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.614][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:56:06.615][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:56:06.617][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.618][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.620][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:56:06.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:56:06.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.629][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:06.630][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:06.631][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.633][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:06.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:06.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.643][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:06.645][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:06.646][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.647][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.649][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:06.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:06.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.658][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:06.659][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:06.660][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.662][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:06.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:06.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.672][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:06.673][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:06.675][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.676][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.678][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:06.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:06.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.686][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:56:06.688][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:06.689][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.690][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.692][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:56:06.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:06.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.701][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.702][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.704][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.705][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.715][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:06.717][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:06.718][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.719][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:06.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:06.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.730][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:06.731][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:06.733][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.734][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.736][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:06.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:06.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.744][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:06.746][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:06.747][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.748][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.750][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:06.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:06.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:06.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:06.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:06.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:06.865][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2023-03-24 21:56:06.866][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-03-24 21:56:06.867][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2023-03-24 21:56:06.883][biodb::testThat]
biodb.INFO [2023-03-24 21:56:06.884][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2023-03-24 21:56:06.885][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:06.887][biodb::testThat]
biodb.INFO [2023-03-24 21:56:06.915][biodb::testThat]
biodb.INFO [2023-03-24 21:56:06.916][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2023-03-24 21:56:06.918][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:06.919][biodb::testThat]
biodb.INFO [2023-03-24 21:56:06.928][biodb::testThat]
biodb.INFO [2023-03-24 21:56:06.930][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2023-03-24 21:56:06.931][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:06.932][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:06.936][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:06.940][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:06.942][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2023-03-24 21:56:06.944][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:06.946][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2023-03-24 21:56:06.965][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:06.966][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:06.968][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.969][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:06.970][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.972][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:06.973][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:06.974][ef$get] fields variable is a list.
biodb.INFO [2023-03-24 21:56:06.976][biodb::testThat]
biodb.INFO [2023-03-24 21:56:06.978][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2023-03-24 21:56:06.979][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:06.980][biodb::testThat]
biodb.ERROR[2023-03-24 21:56:06.998][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2023-03-24 21:56:07.019][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2023-03-24 21:56:07.033][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-03-24 21:56:07.034][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-03-24 21:56:07.036][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-03-24 21:56:07.037][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-03-24 21:56:07.038][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.252][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.254][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-03-24 21:56:07.269][biodb::testContext]
biodb.INFO [2023-03-24 21:56:07.270][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:07.272][biodb::testContext] Test context - Test conversions
biodb.INFO [2023-03-24 21:56:07.273][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:07.274][biodb::testContext]
biodb.INFO [2023-03-24 21:56:07.280][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:56:07.282][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-03-24 21:56:07.287][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:07.288][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-03-24 21:56:07.290][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-03-24 21:56:07.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.294][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-03-24 21:56:07.296][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-03-24 21:56:07.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.301][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-03-24 21:56:07.302][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-03-24 21:56:07.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.307][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-03-24 21:56:07.308][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-03-24 21:56:07.310][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-03-24 21:56:07.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.314][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-03-24 21:56:07.316][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-03-24 21:56:07.317][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-03-24 21:56:07.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.322][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-03-24 21:56:07.323][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-03-24 21:56:07.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.328][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-03-24 21:56:07.329][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-03-24 21:56:07.331][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-03-24 21:56:07.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.335][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-03-24 21:56:07.337][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-03-24 21:56:07.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.342][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-03-24 21:56:07.343][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-03-24 21:56:07.344][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-03-24 21:56:07.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.349][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:56:07.350][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-03-24 21:56:07.352][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-03-24 21:56:07.353][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-03-24 21:56:07.354][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-03-24 21:56:07.356][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-03-24 21:56:07.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.361][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-03-24 21:56:07.362][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-03-24 21:56:07.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.367][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-03-24 21:56:07.368][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-03-24 21:56:07.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.373][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-03-24 21:56:07.374][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-03-24 21:56:07.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.379][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-03-24 21:56:07.380][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-03-24 21:56:07.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.385][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-03-24 21:56:07.387][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-03-24 21:56:07.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.391][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:56:07.393][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-03-24 21:56:07.397][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-03-24 21:56:07.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.402][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-03-24 21:56:07.403][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-03-24 21:56:07.404][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-03-24 21:56:07.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.408][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[2023-03-24 21:56:07.409][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-03-24 21:56:07.412][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:07.413][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-03-24 21:56:07.415][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.416][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:07.417][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.419][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:07.420][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:07.421][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:07.423][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:56:07.424][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:07.425][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.427][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-03-24 21:56:07.428][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:07.429][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.431][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.432][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:07.432][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:07.432][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:07.432][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:56:07.432][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:56:07.433][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:07.435][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:07.436][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:07.437][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:07.438][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:07.439][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:07.441][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:07.442][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.443][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:07.444][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:07.446][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:07.447][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.448][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-03-24 21:56:07.451][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:07.452][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:56:07.453][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.455][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:07.456][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.457][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:07.458][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:07.460][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:07.461][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:56:07.462][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:07.464][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.465][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-03-24 21:56:07.466][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:07.467][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.469][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.470][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:07.470][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:07.470][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:07.470][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:56:07.470][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:56:07.471][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:07.480][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:07.481][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:07.482][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:07.484][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:07.485][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:07.486][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:07.488][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.489][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:07.490][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:07.492][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:07.493][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.494][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-03-24 21:56:07.497][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.498][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-03-24 21:56:07.500][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.501][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:07.502][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.504][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:07.505][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:07.506][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:07.508][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:56:07.509][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:07.510][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:07.512][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-03-24 21:56:07.513][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:07.514][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.516][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.517][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.519][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:07.520][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:07.521][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:07.522][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:07.524][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:07.525][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:07.526][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:07.528][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.529][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:07.530][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:07.531][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:07.533][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.534][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-03-24 21:56:07.537][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.538][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:56:07.539][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.541][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:07.542][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.543][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:07.545][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:07.546][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:07.547][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:56:07.549][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:07.550][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:07.551][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-03-24 21:56:07.553][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:07.554][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.555][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:07.557][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.558][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:07.559][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:07.561][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:07.562][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:07.563][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:07.564][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:07.566][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:07.567][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.568][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:07.569][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:07.571][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:07.572][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:07.574][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:07.575][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.618][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[2023-03-24 21:56:07.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.678][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-03-24 21:56:07.680][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-03-24 21:56:07.682][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-03-24 21:56:07.684][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-03-24 21:56:07.686][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-03-24 21:56:07.688][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-03-24 21:56:07.690][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-03-24 21:56:07.691][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-03-24 21:56:07.693][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-03-24 21:56:07.695][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-03-24 21:56:07.697][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:56:07.706][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-03-24 21:56:07.708][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-03-24 21:56:07.710][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-03-24 21:56:07.712][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-03-24 21:56:07.713][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-03-24 21:56:07.715][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-03-24 21:56:07.717][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-03-24 21:56:07.719][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-03-24 21:56:07.721][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-03-24 21:56:07.723][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-03-24 21:56:07.725][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-03-24 21:56:07.727][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-03-24 21:56:07.729][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-03-24 21:56:07.731][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-03-24 21:56:07.732][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-03-24 21:56:07.734][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-03-24 21:56:07.736][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-03-24 21:56:07.738][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-03-24 21:56:07.740][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-03-24 21:56:07.742][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-03-24 21:56:07.744][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-03-24 21:56:07.746][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-03-24 21:56:07.748][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-03-24 21:56:07.749][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-03-24 21:56:07.751][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-03-24 21:56:07.753][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-03-24 21:56:07.755][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-03-24 21:56:07.757][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-03-24 21:56:07.759][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-03-24 21:56:07.761][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-03-24 21:56:07.763][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-03-24 21:56:07.764][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-03-24 21:56:07.766][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-03-24 21:56:07.768][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-03-24 21:56:07.770][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-03-24 21:56:07.772][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-03-24 21:56:07.774][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-03-24 21:56:07.776][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-03-24 21:56:07.778][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-03-24 21:56:07.780][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-03-24 21:56:07.781][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-03-24 21:56:07.783][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-03-24 21:56:07.785][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-03-24 21:56:07.787][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-03-24 21:56:07.789][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-03-24 21:56:07.791][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-03-24 21:56:07.793][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-03-24 21:56:07.795][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-03-24 21:56:07.796][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-03-24 21:56:07.798][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-03-24 21:56:07.800][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-03-24 21:56:07.802][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-03-24 21:56:07.804][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-03-24 21:56:07.806][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-03-24 21:56:07.808][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-03-24 21:56:07.810][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-03-24 21:56:07.811][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-03-24 21:56:07.813][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-03-24 21:56:07.815][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-03-24 21:56:07.817][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-03-24 21:56:07.819][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-03-24 21:56:07.821][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-03-24 21:56:07.823][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-03-24 21:56:07.825][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-03-24 21:56:07.826][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-03-24 21:56:07.828][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-03-24 21:56:07.830][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-03-24 21:56:07.832][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-03-24 21:56:07.834][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-03-24 21:56:07.836][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-03-24 21:56:07.838][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-03-24 21:56:07.840][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-03-24 21:56:07.842][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-03-24 21:56:07.844][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:56:07.845][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:07.846][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.849][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.892][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[2023-03-24 21:56:07.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.909][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.DEBUG[2023-03-24 21:56:07.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:07.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:07.992][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[2023-03-24 21:56:07.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:07.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:07.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:07.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:07.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:07.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.002][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-03-24 21:56:08.004][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-03-24 21:56:08.007][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.008][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.009][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.011][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:08.012][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.013][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.015][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.016][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-03-24 21:56:08.017][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-03-24 21:56:08.019][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:08.020][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.021][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-03-24 21:56:08.023][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:08.024][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-03-24 21:56:08.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-03-24 21:56:08.024][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-03-24 21:56:08.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-03-24 21:56:08.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-03-24 21:56:08.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-03-24 21:56:08.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-03-24 21:56:08.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-03-24 21:56:08.024][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-03-24 21:56:08.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-03-24 21:56:08.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-03-24 21:56:08.026][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.027][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:08.027][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:08.027][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:08.028][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-03-24 21:56:08.030][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:08.031][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:08.032][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:08.034][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:08.035][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:08.036][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.037][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-03-24 21:56:08.037][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-03-24 21:56:08.039][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:08.040][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:08.041][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.043][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-03-24 21:56:08.043][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-03-24 21:56:08.044][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-03-24 21:56:08.046][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:56:08.049][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-03-24 21:56:08.050][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-03-24 21:56:08.052][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-03-24 21:56:08.055][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-03-24 21:56:08.059][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-03-24 21:56:08.060][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-03-24 21:56:08.062][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-03-24 21:56:08.064][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-03-24 21:56:08.065][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:08.067][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:08.068][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-03-24 21:56:08.070][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-03-24 21:56:08.071][biodb::testThat]
biodb.INFO [2023-03-24 21:56:08.073][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2023-03-24 21:56:08.074][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:08.075][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:08.080][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-03-24 21:56:08.085][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:08.087][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-03-24 21:56:08.088][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:08.091][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-03-24 21:56:08.095][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:08.099][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:08.101][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-03-24 21:56:08.103][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:08.105][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-03-24 21:56:08.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:08.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:08.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:08.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.123][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:08.128][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:08.129][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-03-24 21:56:08.131][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:08.133][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-03-24 21:56:08.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:08.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:08.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:08.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:08.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:08.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:08.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.194][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:08.198][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:08.200][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-03-24 21:56:08.202][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:08.203][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-03-24 21:56:08.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:08.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:08.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:08.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.221][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:08.225][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:08.226][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-03-24 21:56:08.228][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:08.230][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-03-24 21:56:08.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:08.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:08.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:08.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.245][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[2023-03-24 21:56:08.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:08.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:08.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:08.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.263][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:08.267][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:08.269][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-03-24 21:56:08.271][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:08.272][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-03-24 21:56:08.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:08.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:08.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:08.284][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.286][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.290][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:08.294][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:08.296][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-03-24 21:56:08.297][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:08.299][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-03-24 21:56:08.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:08.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:08.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:08.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.317][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:08.321][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:08.322][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2023-03-24 21:56:08.324][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:08.326][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2023-03-24 21:56:08.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:08.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:08.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:08.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-03-24 21:56:08.346][biodb::testThat]
biodb.INFO [2023-03-24 21:56:08.347][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2023-03-24 21:56:08.348][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:08.350][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:08.354][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:08.358][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:08.360][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2023-03-24 21:56:08.362][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:08.364][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2023-03-24 21:56:08.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:08.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:08.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:08.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.390][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:08.394][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:08.396][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2023-03-24 21:56:08.398][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:08.400][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2023-03-24 21:56:08.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:08.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:08.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:08.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-03-24 21:56:08.418][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-03-24 21:56:08.420][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-03-24 21:56:08.421][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-03-24 21:56:08.423][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-03-24 21:56:08.424][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:08.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:08.426][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.429][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-03-24 21:56:08.435][biodb::testContext]
biodb.INFO [2023-03-24 21:56:08.436][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:08.437][biodb::testContext] Test context - Test web services
biodb.INFO [2023-03-24 21:56:08.439][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:08.440][biodb::testContext]
biodb.INFO [2023-03-24 21:56:08.446][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:56:08.448][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-03-24 21:56:08.452][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:08.453][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-03-24 21:56:08.455][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-03-24 21:56:08.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.458][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.DEBUG[2023-03-24 21:56:08.460][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-03-24 21:56:08.461][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-03-24 21:56:08.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.466][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-03-24 21:56:08.467][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-03-24 21:56:08.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.471][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[2023-03-24 21:56:08.472][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-03-24 21:56:08.474][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-03-24 21:56:08.475][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-03-24 21:56:08.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.480][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-03-24 21:56:08.481][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-03-24 21:56:08.482][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-03-24 21:56:08.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.487][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-03-24 21:56:08.489][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-03-24 21:56:08.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.493][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-03-24 21:56:08.495][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-03-24 21:56:08.496][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-03-24 21:56:08.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.501][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-03-24 21:56:08.502][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-03-24 21:56:08.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.507][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-03-24 21:56:08.508][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-03-24 21:56:08.510][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-03-24 21:56:08.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.515][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:56:08.516][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-03-24 21:56:08.517][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-03-24 21:56:08.519][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-03-24 21:56:08.520][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-03-24 21:56:08.521][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-03-24 21:56:08.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.526][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-03-24 21:56:08.528][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-03-24 21:56:08.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.533][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-03-24 21:56:08.534][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-03-24 21:56:08.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.539][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-03-24 21:56:08.540][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-03-24 21:56:08.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.545][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-03-24 21:56:08.546][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-03-24 21:56:08.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.551][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-03-24 21:56:08.553][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-03-24 21:56:08.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.558][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:56:08.559][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-03-24 21:56:08.563][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-03-24 21:56:08.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.568][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-03-24 21:56:08.569][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-03-24 21:56:08.571][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-03-24 21:56:08.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.576][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-03-24 21:56:08.578][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.580][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-03-24 21:56:08.581][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.582][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:08.584][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.585][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.586][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.588][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.589][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:56:08.590][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:08.592][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.593][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-03-24 21:56:08.594][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:08.596][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.597][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.598][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:08.598][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:08.598][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:08.598][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:56:08.598][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:56:08.600][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:08.601][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:08.602][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:08.604][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:08.605][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:08.606][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:08.607][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.609][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.610][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:08.611][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:08.612][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.621][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.623][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-03-24 21:56:08.625][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.627][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:56:08.628][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.629][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:08.631][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.632][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.633][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.635][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.636][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:56:08.637][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:08.639][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.640][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-03-24 21:56:08.641][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:08.643][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.644][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.646][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:08.646][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:08.646][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:08.646][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:56:08.646][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:56:08.647][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:08.648][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:08.649][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:08.651][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:08.652][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:08.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:08.655][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.656][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.657][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:08.658][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:08.660][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.661][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.663][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-03-24 21:56:08.665][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.666][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-03-24 21:56:08.668][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.669][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:08.670][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.672][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.673][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.674][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.676][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:56:08.677][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:08.678][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.680][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-03-24 21:56:08.681][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:08.682][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.684][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.685][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.686][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:08.688][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:08.689][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:08.690][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:08.691][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:08.693][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:08.694][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.695][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.697][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:08.698][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:08.699][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.700][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.702][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-03-24 21:56:08.704][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.706][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:56:08.707][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.708][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:08.710][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.711][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.712][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.714][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.715][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:56:08.716][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:08.718][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.719][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-03-24 21:56:08.720][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:08.722][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.723][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:08.724][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.726][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:08.727][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:08.728][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:08.729][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:08.731][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:08.732][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:08.733][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:08.735][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.736][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:08.737][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:08.738][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:08.740][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:08.741][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:08.743][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.756][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.DEBUG[2023-03-24 21:56:08.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:08.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:08.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:08.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:08.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:08.854][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-03-24 21:56:08.856][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-03-24 21:56:08.858][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-03-24 21:56:08.860][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-03-24 21:56:08.862][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-03-24 21:56:08.864][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-03-24 21:56:08.866][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-03-24 21:56:08.868][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-03-24 21:56:08.870][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-03-24 21:56:08.871][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-03-24 21:56:08.873][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:56:08.875][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-03-24 21:56:08.877][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-03-24 21:56:08.879][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-03-24 21:56:08.881][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-03-24 21:56:08.883][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-03-24 21:56:08.884][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-03-24 21:56:08.886][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-03-24 21:56:08.888][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-03-24 21:56:08.890][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-03-24 21:56:08.892][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-03-24 21:56:08.894][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-03-24 21:56:08.896][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-03-24 21:56:08.897][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-03-24 21:56:08.899][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-03-24 21:56:08.901][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-03-24 21:56:08.903][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-03-24 21:56:08.905][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-03-24 21:56:08.907][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-03-24 21:56:08.909][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-03-24 21:56:08.910][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-03-24 21:56:08.912][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-03-24 21:56:08.914][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-03-24 21:56:08.916][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-03-24 21:56:08.918][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-03-24 21:56:08.920][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-03-24 21:56:08.922][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-03-24 21:56:08.923][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-03-24 21:56:08.925][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-03-24 21:56:08.927][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-03-24 21:56:08.929][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-03-24 21:56:08.931][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-03-24 21:56:08.933][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-03-24 21:56:08.935][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-03-24 21:56:08.936][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-03-24 21:56:08.938][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-03-24 21:56:08.940][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-03-24 21:56:08.942][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-03-24 21:56:08.944][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-03-24 21:56:08.946][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-03-24 21:56:08.948][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-03-24 21:56:08.949][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-03-24 21:56:08.951][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-03-24 21:56:08.953][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-03-24 21:56:08.955][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-03-24 21:56:08.957][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-03-24 21:56:08.959][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-03-24 21:56:08.961][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-03-24 21:56:08.962][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-03-24 21:56:08.964][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-03-24 21:56:08.966][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-03-24 21:56:08.968][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-03-24 21:56:08.970][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-03-24 21:56:08.972][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-03-24 21:56:08.974][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-03-24 21:56:08.976][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-03-24 21:56:08.977][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-03-24 21:56:08.979][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-03-24 21:56:08.981][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-03-24 21:56:08.983][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-03-24 21:56:08.985][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-03-24 21:56:08.987][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-03-24 21:56:08.989][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-03-24 21:56:08.990][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-03-24 21:56:08.992][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-03-24 21:56:08.994][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-03-24 21:56:08.996][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-03-24 21:56:08.998][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-03-24 21:56:09.000][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-03-24 21:56:09.002][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-03-24 21:56:09.004][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-03-24 21:56:09.005][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-03-24 21:56:09.007][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-03-24 21:56:09.009][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-03-24 21:56:09.011][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:56:09.013][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:09.014][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.016][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.067][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[2023-03-24 21:56:09.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.101][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.DEBUG[2023-03-24 21:56:09.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.134][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[2023-03-24 21:56:09.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.167][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[2023-03-24 21:56:09.169][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-03-24 21:56:09.171][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-03-24 21:56:09.173][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.175][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.176][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.177][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:09.179][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.180][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.181][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.183][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-03-24 21:56:09.184][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-03-24 21:56:09.185][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:09.187][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.188][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-03-24 21:56:09.189][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:09.191][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-03-24 21:56:09.191][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-03-24 21:56:09.191][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-03-24 21:56:09.191][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-03-24 21:56:09.191][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-03-24 21:56:09.191][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-03-24 21:56:09.191][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-03-24 21:56:09.191][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-03-24 21:56:09.191][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-03-24 21:56:09.191][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-03-24 21:56:09.191][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-03-24 21:56:09.192][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.193][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:09.193][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:09.193][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:09.195][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-03-24 21:56:09.196][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:09.197][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:09.198][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:09.200][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:09.201][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:09.202][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.203][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-03-24 21:56:09.203][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-03-24 21:56:09.205][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:09.206][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:09.207][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.208][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-03-24 21:56:09.208][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-03-24 21:56:09.210][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-03-24 21:56:09.212][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:56:09.214][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-03-24 21:56:09.216][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-03-24 21:56:09.218][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-03-24 21:56:09.220][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-03-24 21:56:09.225][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-03-24 21:56:09.226][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-03-24 21:56:09.227][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-03-24 21:56:09.229][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-03-24 21:56:09.231][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:09.232][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:09.234][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-03-24 21:56:09.235][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-03-24 21:56:09.237][biodb::testThat]
biodb.INFO [2023-03-24 21:56:09.238][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2023-03-24 21:56:09.240][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:09.241][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:09.245][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-03-24 21:56:09.249][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:09.251][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-03-24 21:56:09.253][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:09.255][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-03-24 21:56:09.259][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:09.263][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-03-24 21:56:09.264][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2023-03-24 21:56:09.266][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-03-24 21:56:09.268][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2023-03-24 21:56:09.274][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-03-24 21:56:09.275][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-03-24 21:56:09.277][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-03-24 21:56:09.285][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-03-24 21:56:09.286][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.289][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.291][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-03-24 21:56:09.298][biodb::testContext]
biodb.INFO [2023-03-24 21:56:09.300][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:09.301][biodb::testContext] Test context - Non regression tests
biodb.INFO [2023-03-24 21:56:09.302][biodb::testContext] ********************************************************************************
biodb.INFO [2023-03-24 21:56:09.303][biodb::testContext]
biodb.INFO [2023-03-24 21:56:09.309][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:56:09.311][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-03-24 21:56:09.316][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:09.317][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-03-24 21:56:09.319][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-03-24 21:56:09.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.322][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[2023-03-24 21:56:09.323][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-03-24 21:56:09.325][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-03-24 21:56:09.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.330][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-03-24 21:56:09.331][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-03-24 21:56:09.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.336][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-03-24 21:56:09.337][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-03-24 21:56:09.339][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-03-24 21:56:09.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.343][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-03-24 21:56:09.345][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-03-24 21:56:09.346][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-03-24 21:56:09.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.351][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-03-24 21:56:09.352][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-03-24 21:56:09.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.357][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-03-24 21:56:09.359][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-03-24 21:56:09.360][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-03-24 21:56:09.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.365][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-03-24 21:56:09.366][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-03-24 21:56:09.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.371][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-03-24 21:56:09.372][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-03-24 21:56:09.374][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-03-24 21:56:09.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.379][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:56:09.380][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-03-24 21:56:09.381][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-03-24 21:56:09.383][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-03-24 21:56:09.384][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-03-24 21:56:09.385][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-03-24 21:56:09.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.390][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-03-24 21:56:09.391][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-03-24 21:56:09.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.396][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-03-24 21:56:09.398][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-03-24 21:56:09.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.402][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-03-24 21:56:09.404][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-03-24 21:56:09.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.407][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[2023-03-24 21:56:09.409][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-03-24 21:56:09.410][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-03-24 21:56:09.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.415][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-03-24 21:56:09.416][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-03-24 21:56:09.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.420][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[2023-03-24 21:56:09.421][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-03-24 21:56:09.423][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-03-24 21:56:09.427][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-03-24 21:56:09.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.432][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-03-24 21:56:09.433][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-03-24 21:56:09.434][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-03-24 21:56:09.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.439][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-03-24 21:56:09.442][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.443][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-03-24 21:56:09.445][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.446][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:09.447][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.449][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.450][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.451][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.453][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:56:09.454][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:09.455][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.457][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-03-24 21:56:09.458][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:09.459][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.461][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.462][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:09.462][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:09.462][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:09.462][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:56:09.462][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:56:09.463][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:09.465][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:09.466][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:09.467][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:09.468][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:09.470][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:09.471][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.472][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.474][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:09.475][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:09.476][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.477][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.479][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-03-24 21:56:09.481][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.483][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:56:09.484][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.485][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:09.487][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.488][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.489][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.491][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.492][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:56:09.493][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:09.495][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.496][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-03-24 21:56:09.498][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:09.499][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.500][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.502][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:09.502][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:09.502][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:09.502][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-03-24 21:56:09.502][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-03-24 21:56:09.503][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:09.512][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:09.513][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:09.514][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:09.516][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:09.517][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:09.518][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.519][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.521][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:09.522][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:09.523][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.525][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.526][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-03-24 21:56:09.529][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.530][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-03-24 21:56:09.531][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.533][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:09.534][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.536][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.537][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.538][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.540][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-03-24 21:56:09.541][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:09.542][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.544][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-03-24 21:56:09.545][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:09.546][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.548][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.549][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.550][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:09.552][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:09.553][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:09.554][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:09.556][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:09.557][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:09.558][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.559][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.561][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:09.562][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:09.563][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.565][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.566][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-03-24 21:56:09.569][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.570][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-03-24 21:56:09.571][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.573][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:09.574][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.575][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.577][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.578][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.579][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-03-24 21:56:09.581][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:09.582][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.584][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-03-24 21:56:09.585][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:09.586][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.588][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:09.589][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.590][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-03-24 21:56:09.592][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:09.593][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:09.594][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:09.595][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:09.597][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:09.598][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:09.599][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.601][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:09.602][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:09.603][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:09.604][self$setPropertyValue]
biodb.DEBUG[2023-03-24 21:56:09.606][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:09.607][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.650][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.DEBUG[2023-03-24 21:56:09.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.668][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[2023-03-24 21:56:09.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.698][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.DEBUG[2023-03-24 21:56:09.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.719][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-03-24 21:56:09.721][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-03-24 21:56:09.723][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-03-24 21:56:09.726][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-03-24 21:56:09.728][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-03-24 21:56:09.730][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-03-24 21:56:09.747][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-03-24 21:56:09.749][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-03-24 21:56:09.751][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-03-24 21:56:09.753][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-03-24 21:56:09.755][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:56:09.757][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-03-24 21:56:09.759][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-03-24 21:56:09.761][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-03-24 21:56:09.763][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-03-24 21:56:09.765][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-03-24 21:56:09.767][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-03-24 21:56:09.769][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-03-24 21:56:09.771][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-03-24 21:56:09.773][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-03-24 21:56:09.775][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-03-24 21:56:09.777][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-03-24 21:56:09.779][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-03-24 21:56:09.781][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-03-24 21:56:09.783][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-03-24 21:56:09.785][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-03-24 21:56:09.787][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-03-24 21:56:09.789][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-03-24 21:56:09.791][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-03-24 21:56:09.793][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-03-24 21:56:09.795][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-03-24 21:56:09.797][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-03-24 21:56:09.799][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-03-24 21:56:09.801][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-03-24 21:56:09.803][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-03-24 21:56:09.805][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-03-24 21:56:09.807][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-03-24 21:56:09.809][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-03-24 21:56:09.811][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-03-24 21:56:09.813][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-03-24 21:56:09.815][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-03-24 21:56:09.817][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-03-24 21:56:09.819][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-03-24 21:56:09.821][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-03-24 21:56:09.823][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-03-24 21:56:09.825][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-03-24 21:56:09.827][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-03-24 21:56:09.829][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-03-24 21:56:09.831][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-03-24 21:56:09.833][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-03-24 21:56:09.835][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-03-24 21:56:09.837][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-03-24 21:56:09.839][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-03-24 21:56:09.841][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-03-24 21:56:09.843][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-03-24 21:56:09.845][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-03-24 21:56:09.847][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-03-24 21:56:09.849][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-03-24 21:56:09.851][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-03-24 21:56:09.853][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-03-24 21:56:09.855][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-03-24 21:56:09.857][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-03-24 21:56:09.859][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-03-24 21:56:09.861][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-03-24 21:56:09.863][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-03-24 21:56:09.865][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-03-24 21:56:09.867][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-03-24 21:56:09.869][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-03-24 21:56:09.871][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-03-24 21:56:09.873][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-03-24 21:56:09.875][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-03-24 21:56:09.877][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-03-24 21:56:09.879][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-03-24 21:56:09.881][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-03-24 21:56:09.883][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-03-24 21:56:09.885][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-03-24 21:56:09.887][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-03-24 21:56:09.889][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-03-24 21:56:09.891][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-03-24 21:56:09.893][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-03-24 21:56:09.895][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-03-24 21:56:09.897][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-03-24 21:56:09.899][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-03-24 21:56:09.902][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-03-24 21:56:09.904][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-03-24 21:56:09.905][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-03-24 21:56:09.907][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.909][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:09.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:09.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:09.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:09.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:09.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:09.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:09.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:10.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:10.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:10.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:10.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:10.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:10.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:10.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:10.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:10.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:10.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:10.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:10.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:10.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:10.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:10.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:10.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:10.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:10.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:10.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:10.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:10.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:10.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:10.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:10.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:10.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:10.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:10.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:10.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:10.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:10.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:10.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:10.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:10.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:10.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:10.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:10.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:10.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:10.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:10.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:10.047][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.DEBUG[2023-03-24 21:56:10.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:10.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:10.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:10.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:10.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:10.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:10.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:10.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-03-24 21:56:10.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:10.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:10.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:10.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:10.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:10.064][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.DEBUG[2023-03-24 21:56:10.066][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-03-24 21:56:10.068][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-03-24 21:56:10.071][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:10.072][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-03-24 21:56:10.074][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:10.075][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-03-24 21:56:10.076][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:10.078][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-03-24 21:56:10.079][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:10.080][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-03-24 21:56:10.082][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-03-24 21:56:10.083][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-03-24 21:56:10.085][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:10.086][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-03-24 21:56:10.087][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-03-24 21:56:10.089][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-03-24 21:56:10.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-03-24 21:56:10.089][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-03-24 21:56:10.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-03-24 21:56:10.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-03-24 21:56:10.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-03-24 21:56:10.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-03-24 21:56:10.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-03-24 21:56:10.089][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-03-24 21:56:10.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-03-24 21:56:10.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-03-24 21:56:10.090][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-03-24 21:56:10.091][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-03-24 21:56:10.091][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-03-24 21:56:10.091][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-03-24 21:56:10.093][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-03-24 21:56:10.094][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:10.096][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:10.097][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-03-24 21:56:10.098][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-03-24 21:56:10.100][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-03-24 21:56:10.101][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-03-24 21:56:10.102][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-03-24 21:56:10.102][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-03-24 21:56:10.104][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-03-24 21:56:10.105][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-03-24 21:56:10.106][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-03-24 21:56:10.107][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-03-24 21:56:10.107][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-03-24 21:56:10.109][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-03-24 21:56:10.112][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-03-24 21:56:10.114][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-03-24 21:56:10.116][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-03-24 21:56:10.118][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-03-24 21:56:10.120][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-03-24 21:56:10.124][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-03-24 21:56:10.126][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-03-24 21:56:10.127][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-03-24 21:56:10.129][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-03-24 21:56:10.131][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:10.132][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-03-24 21:56:10.134][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-03-24 21:56:10.135][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-03-24 21:56:10.137][biodb::testThat]
biodb.INFO [2023-03-24 21:56:10.138][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2023-03-24 21:56:10.140][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-03-24 21:56:10.141][biodb::testThat]
biodb.DEBUG[2023-03-24 21:56:10.146][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.INFO [2023-03-24 21:56:10.150][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2023-03-24 21:56:10.152][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-03-24 21:56:10.153][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-03-24 21:56:10.155][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2023-03-24 21:56:10.979][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2023-03-24 21:56:11.961][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-03-24 21:56:11.970][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2023-03-24 21:56:11.984][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2023-03-24 21:56:11.995][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-03-24 21:56:11.999][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-03-24 21:56:12.001][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-03-24 21:56:12.003][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2023-03-24 21:56:12.803][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2023-03-24 21:56:13.615][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-03-24 21:56:13.624][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2023-03-24 21:56:13.638][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.DEBUG[2023-03-24 21:56:13.646][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2023-03-24 21:56:13.647][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-03-24 21:56:13.649][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2023-03-24 21:56:13.651][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-03-24 21:56:13.652][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-03-24 21:56:13.654][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-03-24 21:56:13.655][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-03-24 21:56:13.657][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2023-03-24 21:56:13.658][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2023-03-24 21:56:13.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:13.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:13.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:13.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:13.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:13.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:13.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-03-24 21:56:13.677][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2023-03-24 21:56:13.680][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-03-24 21:56:13.682][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-03-24 21:56:13.683][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2023-03-24 21:56:14.505][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2023-03-24 21:56:15.865][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-03-24 21:56:15.874][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2023-03-24 21:56:15.888][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2023-03-24 21:56:15.901][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2023-03-24 21:56:15.906][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2023-03-24 21:56:15.928][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-03-24 21:56:15.929][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-03-24 21:56:15.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-03-24 21:56:15.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:15.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:15.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:15.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:15.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:15.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-03-24 21:56:15.949][ef$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:15.950][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:15.952][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:15.953][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:15.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:15.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:15.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:15.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:15.964][ef$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:56:15.965][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:56:15.966][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:15.968][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:15.970][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-03-24 21:56:15.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-03-24 21:56:15.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:15.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:15.978][ef$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:15.980][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:15.981][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:15.982][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:15.984][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-03-24 21:56:15.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-03-24 21:56:15.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:15.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:15.993][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-03-24 21:56:15.995][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-03-24 21:56:15.996][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:15.997][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:15.999][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-03-24 21:56:16.001][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-03-24 21:56:16.002][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.003][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.005][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:16.007][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:16.008][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.009][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.011][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:16.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-03-24 21:56:16.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.020][ef$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:56:16.022][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:16.023][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.024][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.026][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-03-24 21:56:16.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-03-24 21:56:16.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.035][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:16.036][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:16.038][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.039][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:16.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-03-24 21:56:16.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.050][ef$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:16.051][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:16.053][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.054][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-03-24 21:56:16.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-03-24 21:56:16.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.074][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:16.076][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:16.077][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.078][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.080][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-03-24 21:56:16.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-03-24 21:56:16.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.089][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:16.091][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:16.092][ef$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.093][ef$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.095][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-03-24 21:56:16.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-03-24 21:56:16.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:16.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:16.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:16.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:16.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:16.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:16.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-03-24 21:56:16.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-03-24 21:56:16.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:16.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:16.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:16.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:16.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:16.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:16.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:16.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:16.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:16.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:16.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-03-24 21:56:16.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-03-24 21:56:16.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-03-24 21:56:16.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-03-24 21:56:16.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-03-24 21:56:16.161][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2023-03-24 21:56:16.163][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-03-24 21:56:16.165][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-03-24 21:56:16.166][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-03-24 21:56:16.168][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-03-24 21:56:16.169][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-03-24 21:56:16.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-03-24 21:56:16.171][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-03-24 21:56:16.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-03-24 21:56:16.174][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-03-24 21:56:16.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 344 ]
>
> proc.time()
user system elapsed
24.573 4.694 47.204
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 3.886 | 0.642 | 11.547 | |
| ChebiEntry | 0.493 | 0.011 | 0.507 | |