Pierrick Roger
| Snapshot Date: 2023-10-15 14:00:13 -0400 (Sun, 15 Oct 2023) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: RELEASE_3_17 |
| git_last_commit: f213a8b |
| git_last_commit_date: 2023-04-25 11:32:59 -0400 (Tue, 25 Apr 2023) |
| Back to Multiple platform build/check report for BioC 3.17: simplified long |
|
This page was generated on 2023-10-16 11:36:52 -0400 (Mon, 16 Oct 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4626 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" | 4379 |
| merida1 | macOS 12.6.4 Monterey | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4395 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 195/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.6.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.6.4 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson2 | macOS 12.6.1 Monterey / arm64 | see weekly results here | ||||||||||||
|
To the developers/maintainers of the biodbChebi package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: biodbChebi |
| Version: 1.6.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.6.0.tar.gz |
| StartedAt: 2023-10-15 23:06:45 -0400 (Sun, 15 Oct 2023) |
| EndedAt: 2023-10-15 23:09:50 -0400 (Sun, 15 Oct 2023) |
| EllapsedTime: 184.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.6.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.17-bioc/meat/biodbChebi.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
Apple clang version 14.0.3 (clang-1403.0.22.14.1)
GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.6.4
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.6.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking 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 4.591 1.162 14.821
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/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 version 4.3.1 (2023-06-16) -- "Beagle Scouts"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20 (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2023-10-15 23:08:44.681][biodb::testContext]
biodb.INFO [2023-10-15 23:08:44.691][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:08:44.694][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-10-15 23:08:44.696][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:08:44.699][biodb::testContext]
biodb.INFO [2023-10-15 23:08:44.716][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:08:44.720][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2023-10-15 23:08:44.738][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:08:44.741][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-15 23:08:44.744][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-15 23:08:44.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:44.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:44.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:44.759][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-15 23:08:44.831][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-15 23:08:44.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:44.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:44.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:44.845][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-15 23:08:44.848][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-15 23:08:44.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:44.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:44.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:44.861][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-15 23:08:44.867][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-15 23:08:44.870][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-15 23:08:44.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:44.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:44.886][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[2023-10-15 23:08:44.888][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-15 23:08:44.891][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-15 23:08:44.893][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-15 23:08:44.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:44.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:44.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:44.905][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-15 23:08:44.911][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-15 23:08:44.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:44.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:44.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:44.926][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-15 23:08:44.929][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-15 23:08:44.932][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-15 23:08:44.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:44.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:44.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:44.943][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-15 23:08:44.946][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-15 23:08:44.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:44.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:44.954][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[2023-10-15 23:08:44.957][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-15 23:08:44.962][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-15 23:08:44.965][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-15 23:08:44.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:44.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:44.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:44.978][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:08:44.981][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-15 23:08:44.986][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-15 23:08:44.989][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-15 23:08:44.992][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-15 23:08:44.994][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-15 23:08:44.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.006][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-15 23:08:45.009][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-15 23:08:45.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.025][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-15 23:08:45.028][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-15 23:08:45.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.039][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-15 23:08:45.042][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-15 23:08:45.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.054][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-15 23:08:45.057][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-15 23:08:45.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.066][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[2023-10-15 23:08:45.068][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-15 23:08:45.074][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-15 23:08:45.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.087][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:08:45.090][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-15 23:08:45.120][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-15 23:08:45.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.130][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-15 23:08:45.133][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-15 23:08:45.136][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-15 23:08:45.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.155][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-15 23:08:45.283][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:45.350][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-10-15 23:08:45.357][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.359][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:08:45.361][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.363][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:08:45.365][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:45.370][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:08:45.372][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:08:45.373][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:08:45.376][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.378][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-15 23:08:45.382][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:08:45.384][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.386][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.388][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:08:45.388][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:08:45.388][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:08:45.388][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:08:45.388][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:08:45.395][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:08:45.397][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:08:45.399][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:08:45.401][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:08:45.404][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:08:45.406][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:08:45.408][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:08:45.411][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.413][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:08:45.418][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:08:45.420][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:45.423][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.427][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-15 23:08:45.434][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:45.436][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:08:45.439][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.441][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:08:45.447][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.450][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:08:45.452][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:45.454][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:08:45.459][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:08:45.461][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:08:45.464][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.466][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-15 23:08:45.469][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:08:45.472][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.474][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.476][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:08:45.476][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:08:45.476][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:08:45.476][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:08:45.476][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:08:45.481][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:08:45.484][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:08:45.486][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:08:45.488][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:08:45.490][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:08:45.495][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:08:45.497][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:08:45.499][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.501][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:08:45.503][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:08:45.507][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:45.509][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.512][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-15 23:08:45.519][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.522][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-10-15 23:08:45.524][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.527][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:08:45.532][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.534][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:08:45.537][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:45.539][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:08:45.543][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:08:45.545][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:08:45.548][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:45.551][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-15 23:08:45.558][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:08:45.560][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.563][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.566][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.571][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:08:45.574][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:08:45.576][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:08:45.578][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:08:45.582][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:08:45.584][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:08:45.586][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:08:45.589][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.591][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:08:45.595][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:08:45.598][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:45.601][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.604][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-15 23:08:45.611][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.613][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:08:45.615][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.621][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:08:45.625][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.628][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:08:45.630][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:45.632][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:08:45.639][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:08:45.642][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:08:45.644][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:45.646][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-15 23:08:45.650][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:08:45.653][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.655][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:45.657][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.662][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:08:45.664][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:08:45.666][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:08:45.668][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:08:45.671][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:08:45.676][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:08:45.678][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:08:45.680][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.683][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:08:45.684][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:08:45.690][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:45.692][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:08:45.705][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:08:45.707][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.722][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[2023-10-15 23:08:45.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.781][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.DEBUG[2023-10-15 23:08:45.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:45.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:45.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:45.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:45.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:45.941][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[2023-10-15 23:08:45.944][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-15 23:08:45.957][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-15 23:08:45.960][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-15 23:08:45.966][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-15 23:08:45.969][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 23:08:45.973][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-15 23:08:45.983][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-15 23:08:45.986][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-15 23:08:45.989][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-15 23:08:45.992][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-15 23:08:45.998][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 23:08:46.001][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-15 23:08:46.008][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-15 23:08:46.014][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-15 23:08:46.017][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-15 23:08:46.022][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 23:08:46.026][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-15 23:08:46.029][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-15 23:08:46.034][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 23:08:46.037][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-15 23:08:46.041][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-15 23:08:46.047][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-15 23:08:46.051][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-15 23:08:46.059][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-15 23:08:46.062][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-15 23:08:46.066][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-15 23:08:46.086][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-15 23:08:46.089][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-15 23:08:46.092][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-15 23:08:46.100][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-15 23:08:46.105][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-15 23:08:46.108][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-15 23:08:46.116][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-15 23:08:46.119][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-15 23:08:46.123][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-15 23:08:46.132][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-15 23:08:46.136][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-15 23:08:46.139][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-15 23:08:46.147][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-15 23:08:46.150][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-15 23:08:46.153][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-15 23:08:46.159][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-15 23:08:46.162][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-15 23:08:46.166][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-15 23:08:46.173][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-15 23:08:46.176][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-15 23:08:46.180][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-15 23:08:46.185][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-15 23:08:46.188][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-15 23:08:46.191][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-15 23:08:46.197][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-15 23:08:46.200][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-15 23:08:46.202][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-15 23:08:46.205][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-15 23:08:46.210][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-15 23:08:46.213][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-15 23:08:46.216][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-15 23:08:46.224][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-15 23:08:46.229][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-15 23:08:46.236][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-15 23:08:46.239][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-15 23:08:46.243][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-15 23:08:46.248][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-15 23:08:46.252][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-15 23:08:46.256][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-15 23:08:46.264][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-15 23:08:46.268][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 23:08:46.271][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 23:08:46.274][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-15 23:08:46.277][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-15 23:08:46.281][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-15 23:08:46.285][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-15 23:08:46.288][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-15 23:08:46.292][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-15 23:08:46.298][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-15 23:08:46.301][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-15 23:08:46.305][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-15 23:08:46.313][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-15 23:08:46.317][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-15 23:08:46.320][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-15 23:08:46.326][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-15 23:08:46.329][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-15 23:08:46.333][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-15 23:08:46.349][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-15 23:08:46.352][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:08:46.360][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:08:46.362][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.366][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:46.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.401][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[2023-10-15 23:08:46.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:46.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.442][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.DEBUG[2023-10-15 23:08:46.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:46.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:46.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:46.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:46.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:46.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:46.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.574][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[2023-10-15 23:08:46.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:46.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:46.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:46.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.647][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[2023-10-15 23:08:46.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.671][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[2023-10-15 23:08:46.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.688][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[2023-10-15 23:08:46.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:08:46.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:46.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:46.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:46.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:46.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:46.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:46.716][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-10-15 23:08:46.746][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-10-15 23:08:46.751][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:46.755][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-15 23:08:46.757][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:46.760][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:08:46.762][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:46.771][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:08:46.774][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:46.777][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-10-15 23:08:46.779][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-10-15 23:08:46.784][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:08:46.786][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:46.789][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-10-15 23:08:46.791][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:08:46.793][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-10-15 23:08:46.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-10-15 23:08:46.793][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-10-15 23:08:46.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-10-15 23:08:46.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-10-15 23:08:46.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-10-15 23:08:46.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-10-15 23:08:46.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-10-15 23:08:46.793][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-10-15 23:08:46.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-10-15 23:08:46.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-10-15 23:08:46.799][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-15 23:08:46.802][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:08:46.802][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:08:46.802][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:08:46.804][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-10-15 23:08:46.807][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:08:46.815][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:08:46.817][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:08:46.820][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:08:46.822][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:08:46.825][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:08:46.838][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-10-15 23:08:46.838][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-10-15 23:08:46.840][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:08:46.842][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:08:46.844][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-15 23:08:46.847][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-10-15 23:08:46.847][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-10-15 23:08:46.866][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 23:08:46.870][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 23:08:46.874][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-10-15 23:08:46.878][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 23:08:46.881][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 23:08:46.888][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 23:08:46.959][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-10-15 23:08:46.962][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-10-15 23:08:46.974][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-10-15 23:08:46.985][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-10-15 23:08:46.998][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 23:08:47.000][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 23:08:47.006][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-10-15 23:08:47.009][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-10-15 23:08:47.036][biodb::testThat]
biodb.INFO [2023-10-15 23:08:47.038][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2023-10-15 23:08:47.041][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:08:47.043][biodb::testThat]
biodb.TRACE[2023-10-15 23:08:47.054][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2023-10-15 23:08:47.061][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:08:47.069][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:08:47.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:47.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:47.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:47.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:47.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:47.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:47.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:08:47.170][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:47.172][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:47.177][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.179][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:47.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:47.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.236][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:47.244][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:47.246][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.249][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.343][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:47.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:47.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.358][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:47.360][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:47.362][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.367][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.369][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:47.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:47.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.383][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:47.385][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:47.388][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.393][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.396][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:47.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:47.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.409][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:47.412][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:47.414][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.419][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.422][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:47.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:47.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.435][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:47.444][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:47.447][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.450][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.452][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:47.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:47.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.466][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:08:47.473][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:47.483][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.485][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.488][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:08:47.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:47.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.503][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:47.507][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:47.510][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.512][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:47.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:47.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.531][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:47.538][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:47.540][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.544][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.548][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:47.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:47.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.563][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:47.571][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:47.574][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.576][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.584][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:47.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:47.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.597][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:47.599][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:47.603][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.606][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.612][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:47.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:47.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:47.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:47.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:47.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:47.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:47.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:47.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:47.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:47.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:47.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:47.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:47.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:47.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:47.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:47.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:47.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:47.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:47.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:47.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:47.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:47.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:47.928][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2023-10-15 23:08:47.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:47.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:47.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:47.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:47.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:47.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:47.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.039][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:48.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:48.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.054][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:48.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:48.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.093][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:08:48.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:08:48.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.106][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:08:48.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:08:48.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.119][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-15 23:08:48.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-15 23:08:48.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.133][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-15 23:08:48.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-15 23:08:48.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:48.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:48.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:48.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:48.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:48.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:48.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:48.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:48.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:48.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:48.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:48.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:48.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:48.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:48.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:48.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:48.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:48.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:48.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:48.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:48.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.523][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:48.526][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:48.528][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.530][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:48.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:48.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.626][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.634][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.637][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.639][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:48.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.687][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:48.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:48.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.706][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:48.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:48.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:48.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:48.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.739][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:48.741][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:48.744][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.746][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.752][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:48.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:48.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.787][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:48.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:48.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.800][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:48.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:48.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.812][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:48.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:48.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.826][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:48.829][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:48.832][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.834][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.839][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:48.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:48.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.924][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.927][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.929][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.931][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:48.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:48.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:48.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:48.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:48.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:48.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:49.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:49.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:49.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.023][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:49.025][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:49.027][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.034][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:49.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:49.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.077][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:49.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:49.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.089][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:49.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:49.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.104][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:49.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:49.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.118][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:49.121][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:49.123][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.128][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.130][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:49.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:49.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.217][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-10-15 23:08:49.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:49.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.232][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-10-15 23:08:49.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:49.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.244][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-10-15 23:08:49.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:49.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.254][ef$get] Asked field names are: n.stars.
biodb.TRACE[2023-10-15 23:08:49.258][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:49.264][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.267][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.269][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-10-15 23:08:49.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:49.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.309][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:49.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:49.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.321][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:49.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:49.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.335][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:49.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:49.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.347][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:49.350][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:49.352][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.359][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.362][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:49.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:49.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.403][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:49.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:49.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.417][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:49.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:49.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.430][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:49.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:49.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.443][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:49.445][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:49.447][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.455][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.457][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:49.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:49.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.497][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:49.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:49.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.507][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:49.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:49.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.520][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:49.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:49.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.533][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:49.537][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:49.539][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.542][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.548][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:49.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:49.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:49.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:49.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:49.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:49.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.608][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:49.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:49.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.621][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:49.627][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:49.630][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.632][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:49.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:49.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.673][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:49.679][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:49.682][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.684][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.705][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:49.708][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:49.710][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.713][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.729][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:49.732][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:49.734][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.737][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.756][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:49.759][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:49.762][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.767][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.783][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:49.786][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:49.788][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.792][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.809][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:49.812][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:49.814][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.822][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.838][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:49.842][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:49.857][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.863][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.878][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:49.880][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:49.883][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.894][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.910][ef$get] Asked field names are: n.stars.
biodb.TRACE[2023-10-15 23:08:49.913][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:49.919][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.922][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.937][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:49.944][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:49.946][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.949][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:49.964][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:49.970][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:49.973][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:49.975][ef$get] fields variable is a list.
biodb.INFO [2023-10-15 23:08:50.003][biodb::testThat]
biodb.INFO [2023-10-15 23:08:50.008][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-10-15 23:08:50.011][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:08:50.013][biodb::testThat]
biodb.DEBUG[2023-10-15 23:08:50.071][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2023-10-15 23:08:50.091][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:08:50.102][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2023-10-15 23:08:50.105][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:50.115][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2023-10-15 23:08:50.117][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:08:50.209][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:08:50.212][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:08:50.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:50.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:50.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:50.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:50.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:50.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:50.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:08:50.260][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:50.262][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:50.264][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.266][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:50.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:50.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.354][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:50.356][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:50.363][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.366][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.369][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:50.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:50.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.382][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:50.385][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:50.391][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.393][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:50.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:50.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.412][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:50.416][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:50.424][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.426][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:50.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:50.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.444][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:50.446][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:50.452][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.455][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:50.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:50.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.474][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:50.477][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:50.481][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.484][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.487][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:50.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:50.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.501][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:08:50.503][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:50.510][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.513][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.516][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:08:50.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:50.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.531][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:50.538][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:50.540][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.542][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:50.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:50.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.571][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:50.577][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:50.579][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.581][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.585][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:50.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:50.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.601][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:50.606][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:50.608][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.610][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.613][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:50.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:50.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.631][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:50.636][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:50.639][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.641][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.644][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:50.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:50.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:50.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:50.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:50.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:50.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:50.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:50.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:50.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:50.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:50.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:50.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:50.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:50.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:50.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:50.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:50.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:50.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:50.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:50.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:50.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:50.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:50.811][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2023-10-15 23:08:50.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-10-15 23:08:50.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-10-15 23:08:50.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-10-15 23:08:50.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-10-15 23:08:50.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:50.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-10-15 23:08:50.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-10-15 23:08:50.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 23:08:50.890][biodb::testThat]
biodb.INFO [2023-10-15 23:08:50.892][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2023-10-15 23:08:50.894][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:08:50.897][biodb::testThat]
biodb.TRACE[2023-10-15 23:08:50.905][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:50.911][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:50.913][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:50.915][ef$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:50.918][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2023-10-15 23:08:51.025][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:51.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:51.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:51.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:51.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:51.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:51.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:51.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:51.055][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:51.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:51.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:51.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:51.082][function(conn, opt)] With value "squalene".
biodb.DEBUG[2023-10-15 23:08:51.096][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-10-15 23:08:51.165][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:08:51.222][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-10-15 23:08:51.225][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:51.231][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-10-15 23:08:51.334][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:08:51.341][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:08:51.350][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 23:08:51.353][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:51.358][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-10-15 23:08:51.363][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2023-10-15 23:08:51.416][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:51.419][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:51.421][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:51.430][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:51.432][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:51.435][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:51.437][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:51.443][ef$get] fields variable is a list.
biodb.INFO [2023-10-15 23:08:51.456][biodb::testThat]
biodb.INFO [2023-10-15 23:08:51.459][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2023-10-15 23:08:51.461][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:08:51.463][biodb::testThat]
biodb.TRACE[2023-10-15 23:08:51.562][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:51.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:51.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:51.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:51.576][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:51.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:51.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:51.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:51.590][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:51.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:51.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:51.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:51.818][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:08:51.831][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:08:51.838][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 23:08:51.841][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:51.843][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2023-10-15 23:08:51.904][biodb::testThat]
biodb.INFO [2023-10-15 23:08:51.916][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2023-10-15 23:08:51.931][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:08:51.933][biodb::testThat]
biodb.TRACE[2023-10-15 23:08:52.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:52.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:52.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.021][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:52.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:52.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.032][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:52.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:52.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:52.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:52.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:52.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:52.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:52.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:52.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.080][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:08:52.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:08:52.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.089][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:08:52.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:08:52.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.102][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-15 23:08:52.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-15 23:08:52.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.116][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-15 23:08:52.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-15 23:08:52.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:52.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:52.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:52.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:52.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:52.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:52.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.231][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:52.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:52.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:52.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:52.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:52.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:52.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.275][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:08:52.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:08:52.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.284][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:08:52.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:08:52.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.301][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-15 23:08:52.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-15 23:08:52.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:52.312][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-15 23:08:52.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-15 23:08:52.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:52.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 23:08:52.343][biodb::testThat]
biodb.INFO [2023-10-15 23:08:52.345][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-10-15 23:08:52.350][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:08:52.353][biodb::testThat]
biodb.INFO [2023-10-15 23:08:52.384][biodb::testThat]
biodb.INFO [2023-10-15 23:08:52.387][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-10-15 23:08:52.389][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:08:52.393][biodb::testThat]
biodb.INFO [2023-10-15 23:08:52.423][biodb::testThat]
biodb.INFO [2023-10-15 23:08:52.425][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2023-10-15 23:08:52.427][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:08:52.429][biodb::testThat]
biodb.DEBUG[2023-10-15 23:08:52.440][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2023-10-15 23:08:53.585][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2023-10-15 23:08:54.732][biodb::testThat]
biodb.INFO [2023-10-15 23:08:54.734][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2023-10-15 23:08:54.736][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:08:54.739][biodb::testThat]
biodb.DEBUG[2023-10-15 23:08:55.295][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2023-10-15 23:08:55.875][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:55.877][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:55.879][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:55.881][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:55.883][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:55.886][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:55.888][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:55.890][ef$get] fields variable is a list.
biodb.INFO [2023-10-15 23:08:55.893][biodb::testThat]
biodb.INFO [2023-10-15 23:08:55.895][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2023-10-15 23:08:55.897][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:08:55.899][biodb::testThat]
biodb.TRACE[2023-10-15 23:08:55.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:55.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:55.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:55.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:55.939][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:55.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:55.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:55.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:55.949][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:55.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:55.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:55.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:56.184][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:08:56.192][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:08:56.198][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 23:08:56.201][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:56.204][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-10-15 23:08:56.429][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:08:56.446][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:08:56.449][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 23:08:56.455][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:56.458][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2023-10-15 23:08:56.514][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-15 23:08:56.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-15 23:08:56.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:56.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:56.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:56.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:56.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:56.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:56.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:56.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:56.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:56.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:56.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:56.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:56.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:56.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:56.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:56.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:56.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:56.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:56.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:56.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:56.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:56.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:56.659][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:08:56.669][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:08:56.672][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-10-15 23:08:56.675][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:56.678][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-10-15 23:08:56.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:56.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:56.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:56.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:56.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:56.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:56.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:56.722][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2023-10-15 23:08:56.891][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:08:56.899][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2023-10-15 23:08:56.902][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:56.905][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2023-10-15 23:08:56.908][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:08:56.911][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:08:56.913][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:08:56.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:56.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:56.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:56.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:56.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:56.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:56.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:08:56.969][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:56.972][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:56.974][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:56.976][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:56.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:56.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:56.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:56.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:56.993][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:57.000][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:57.002][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.004][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.006][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:57.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:57.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.018][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:57.030][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:57.032][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.034][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.038][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:57.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:57.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.055][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:57.061][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:57.063][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.065][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.068][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:57.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:57.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.087][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:57.096][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:57.098][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.100][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:57.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:57.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.119][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:57.130][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:57.132][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.135][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.138][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:08:57.143][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.146][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.148][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.152][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:08:57.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.171][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:57.173][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:57.182][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.184][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:57.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:57.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.212][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:57.215][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:57.223][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.225][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:57.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:57.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.240][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:57.242][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:57.244][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.248][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.251][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:57.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:57.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.265][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:57.268][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:57.270][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.276][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.278][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:57.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:57.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:57.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:57.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:57.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:57.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:57.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:57.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:57.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:57.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:57.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:57.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:57.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:57.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:57.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:57.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:57.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:57.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:57.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:57.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:57.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:57.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:57.417][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2023-10-15 23:08:57.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:57.496][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:08:57.510][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:08:57.515][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-10-15 23:08:57.518][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:57.521][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-10-15 23:08:57.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:57.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:57.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:57.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:57.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:57.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:57.608][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.TRACE[2023-10-15 23:08:57.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:57.659][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:08:57.668][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:08:57.675][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-10-15 23:08:57.677][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:57.681][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-10-15 23:08:57.770][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:08:57.780][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:08:57.783][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 23:08:57.786][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:57.793][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-10-15 23:08:57.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:57.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:57.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:57.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:57.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:57.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:57.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:08:57.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:57.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:57.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:57.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:57.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:57.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:57.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:57.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:57.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:57.910][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2023-10-15 23:08:57.912][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:08:57.919][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2023-10-15 23:08:57.923][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:57.926][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2023-10-15 23:08:57.929][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:08:57.931][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:08:57.934][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:08:57.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:57.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:57.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:57.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:57.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:57.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:57.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:08:57.981][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:57.984][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:57.986][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:57.988][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:57.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:57.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.006][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:58.011][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:58.014][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.016][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.019][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:58.024][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:58.026][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.028][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.041][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:58.047][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:58.049][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.052][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.057][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:58.060][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:58.063][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.065][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.072][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:58.075][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:58.078][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.081][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.087][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:08:58.091][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.093][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.095][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.099][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:58.101][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:58.103][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.105][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.111][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:58.114][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:58.116][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.118][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:58.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:58.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.137][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:58.140][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:58.142][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.144][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.147][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:58.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:58.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.156][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:58.166][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:58.168][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.170][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:58.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:58.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:58.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:58.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:58.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:58.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:58.318][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2023-10-15 23:08:58.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:58.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:58.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:58.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:58.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:58.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:58.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:58.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:58.427][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2023-10-15 23:08:58.430][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:08:58.433][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2023-10-15 23:08:58.436][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:58.447][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2023-10-15 23:08:58.450][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:08:58.453][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:08:58.455][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:08:58.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:58.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:58.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:58.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:58.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:58.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:58.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:08:58.500][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.503][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.505][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.508][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.527][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:58.531][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:58.533][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.535][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.538][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:58.542][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:58.545][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.547][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.551][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:58.553][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:58.555][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.557][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.560][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:58.567][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:58.569][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.571][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.574][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:58.580][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:58.583][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.586][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.588][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:08:58.593][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.595][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.597][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.600][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:58.606][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:58.609][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.611][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.614][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:58.620][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:58.622][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.624][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.628][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:58.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:58.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.641][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:58.650][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:58.652][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.654][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.657][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:58.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:58.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.667][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:58.670][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:58.675][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.677][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:58.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:58.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:58.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:58.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:58.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:58.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:58.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:58.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:58.809][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2023-10-15 23:08:58.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:58.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:58.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:58.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:58.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:58.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:58.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:58.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:58.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:58.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:58.928][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[2023-10-15 23:08:58.930][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2023-10-15 23:08:58.933][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:08:58.940][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2023-10-15 23:08:58.948][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:58.952][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2023-10-15 23:08:58.958][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:08:58.962][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:08:58.964][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:08:58.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:58.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:58.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:58.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:58.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:58.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:58.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:08:59.002][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.010][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.012][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.015][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.030][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:59.036][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:59.038][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.041][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.044][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:59.049][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:59.054][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.056][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.060][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:59.065][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:59.067][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.069][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.072][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:59.080][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:59.082][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.084][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.086][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:59.093][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:59.095][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.097][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.099][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:08:59.105][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.107][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.109][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.112][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:59.114][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:59.121][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.123][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.126][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:59.128][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:59.133][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.135][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.139][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:59.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:59.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.150][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:59.152][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:59.161][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.163][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.166][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:59.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:59.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.179][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:59.181][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:59.183][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.188][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:59.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:59.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:59.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:59.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:59.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:59.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:59.305][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2023-10-15 23:08:59.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:59.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:59.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:59.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:59.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:59.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:59.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:59.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:08:59.422][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2023-10-15 23:08:59.424][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:08:59.430][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2023-10-15 23:08:59.433][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:08:59.441][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2023-10-15 23:08:59.450][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:08:59.452][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:08:59.454][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:08:59.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:59.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:59.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:08:59.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:08:59.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:08:59.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:08:59.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:08:59.497][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.504][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.506][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.508][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.522][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:59.524][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:59.527][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.529][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.532][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:08:59.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:08:59.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.548][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:59.550][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:59.553][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.558][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.561][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:08:59.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:08:59.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.580][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:59.582][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:59.584][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.589][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:08:59.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:08:59.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.607][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:59.609][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:59.611][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.613][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:08:59.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:08:59.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.633][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:59.635][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:59.637][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.639][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.646][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:59.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:08:59.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.656][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:08:59.658][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.661][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.663][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.671][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:08:59.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.685][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:59.687][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:59.689][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.691][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:59.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:08:59.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.711][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:59.717][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:59.719][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.721][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:08:59.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:08:59.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.739][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:59.743][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:59.746][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.749][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.757][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:08:59.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:08:59.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.771][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:59.774][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:59.776][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.779][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.787][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:08:59.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:08:59.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:59.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:59.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:59.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:59.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:08:59.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:08:59.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:08:59.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:08:59.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:59.947][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2023-10-15 23:08:59.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:08:59.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:08:59.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:08:59.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:08:59.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:08:59.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:08:59.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:00.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:00.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:00.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:00.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:00.029][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2023-10-15 23:09:00.032][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:00.035][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2023-10-15 23:09:00.039][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:00.043][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2023-10-15 23:09:00.045][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:00.047][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:00.050][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:00.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:00.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:00.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:00.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:00.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:00.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:00.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:00.105][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:00.108][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:00.110][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.112][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:00.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:00.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.127][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:00.133][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:00.136][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.139][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.141][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:00.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:00.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.154][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:00.160][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:00.162][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.164][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.167][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:00.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:00.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.182][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:00.189][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:00.192][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.194][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:00.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:00.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.209][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:00.215][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:00.217][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.219][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:00.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:00.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.236][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:00.238][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:00.242][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.245][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.247][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:00.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:00.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.261][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:00.264][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:00.271][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.277][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.279][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:00.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:00.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.296][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:00.299][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:00.302][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.304][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:00.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:00.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.320][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:00.322][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:00.324][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.331][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.335][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:00.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:00.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.346][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:00.348][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:00.350][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.352][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.358][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:00.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:00.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.369][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:00.372][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:00.374][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.376][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.385][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:00.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:00.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:00.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:00.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:00.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:00.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:00.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:00.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:00.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:00.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:00.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:00.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:00.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:00.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:00.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:00.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:00.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:00.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:00.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:00.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:00.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:00.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:00.542][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2023-10-15 23:09:00.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:00.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:00.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:00.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:00.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:00.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:00.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:00.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:00.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:00.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:00.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:00.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:00.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:00.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:00.615][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2023-10-15 23:09:00.618][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:00.621][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2023-10-15 23:09:00.625][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:00.629][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2023-10-15 23:09:00.633][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:00.636][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:00.639][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:00.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:00.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:00.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:00.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:00.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:00.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:00.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:00.681][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:00.687][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:00.690][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.692][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:00.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:00.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.710][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:00.712][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:00.716][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.718][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.721][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:00.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:00.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.735][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:00.737][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:00.745][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.747][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.750][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:00.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:00.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.761][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:00.763][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:00.765][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.767][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.772][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:00.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:00.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.788][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:00.791][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:00.792][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.794][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:00.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:00.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.811][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:00.818][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:00.820][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.822][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.825][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:00.831][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:00.833][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.834][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.837][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:00.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:00.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.849][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:00.852][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:00.859][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.861][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:00.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:00.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.877][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:00.879][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:00.881][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.887][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.890][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:00.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:00.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.905][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:00.907][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:00.909][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.912][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.917][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:00.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:00.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.933][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:00.935][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:00.937][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.939][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.943][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:00.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:00.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:00.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:00.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:00.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:00.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:00.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:00.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:00.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:00.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:01.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:01.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:01.093][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2023-10-15 23:09:01.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:01.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:01.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:01.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:01.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:01.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:01.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:01.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:01.170][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2023-10-15 23:09:01.172][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:01.176][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2023-10-15 23:09:01.180][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:01.184][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2023-10-15 23:09:01.186][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:01.188][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:01.191][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:01.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:01.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:01.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:01.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:01.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:01.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:01.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:01.231][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.238][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.241][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.243][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.262][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:01.267][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:01.269][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.271][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.274][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:01.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:01.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.285][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:01.295][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:01.299][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.306][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.309][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:01.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:01.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.324][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:01.326][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:01.331][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.333][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:01.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:01.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.350][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:01.352][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:01.358][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.360][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:01.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:01.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.380][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:01.382][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:01.385][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.388][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.392][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:01.394][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.396][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.401][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.404][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:01.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.416][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:01.418][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:01.420][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.428][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:01.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:01.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.445][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:01.447][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:01.449][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.451][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.457][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:01.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:01.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.471][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:01.473][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:01.475][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.477][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.482][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:01.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:01.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.495][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:01.502][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:01.504][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.507][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.512][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:01.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:01.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:01.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:01.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:01.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:01.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:01.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:01.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:01.665][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2023-10-15 23:09:01.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:01.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:01.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:01.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:01.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:01.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:01.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:01.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:01.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:01.755][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2023-10-15 23:09:01.757][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:01.761][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2023-10-15 23:09:01.769][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:01.783][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2023-10-15 23:09:01.786][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:01.788][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:01.791][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:01.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:01.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:01.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:01.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:01.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:01.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:01.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:01.850][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.853][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.855][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.858][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:01.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:01.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.879][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:01.882][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:01.884][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.885][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.888][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:01.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:01.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.903][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:01.910][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:01.913][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.915][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.917][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:01.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:01.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.931][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:01.939][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:01.942][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.944][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:01.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:01.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.960][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:01.962][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:01.970][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.973][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.975][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:01.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:01.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:01.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:01.991][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:01.993][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:02.001][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.003][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.006][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:02.009][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.016][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.018][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.021][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:02.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.036][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:02.039][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:02.049][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.052][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:02.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:02.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.072][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:02.074][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:02.080][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.083][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.086][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:02.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:02.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.101][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:02.103][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:02.105][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.111][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.115][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:02.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:02.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.143][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:02.145][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:02.147][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.149][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.154][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:02.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:02.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:02.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:02.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:02.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:02.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:02.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:02.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:02.313][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2023-10-15 23:09:02.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:02.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:02.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:02.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:02.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:02.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:02.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:02.389][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[2023-10-15 23:09:02.391][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2023-10-15 23:09:02.397][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:02.402][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2023-10-15 23:09:02.405][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:02.408][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2023-10-15 23:09:02.411][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:02.413][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:02.415][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:02.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:02.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:02.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:02.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:02.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:02.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:02.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:02.463][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.470][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.472][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.474][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.489][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:02.496][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:02.498][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.500][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.503][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:02.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:02.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.514][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:02.517][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:02.523][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.525][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.528][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:02.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:02.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.542][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:02.544][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:02.549][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.551][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.554][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:02.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:02.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.566][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:02.569][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:02.571][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.578][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.581][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:02.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:02.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.594][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:02.597][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:02.599][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.605][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.608][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:02.610][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.612][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.617][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.620][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:02.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.634][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:02.636][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:02.638][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.644][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:02.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:02.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.657][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:02.660][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:02.662][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.664][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.672][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:02.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:02.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.702][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:02.704][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:02.706][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.708][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.712][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:02.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:02.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.721][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:02.726][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:02.729][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.731][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.734][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:02.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:02.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:02.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:02.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:02.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:02.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:02.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:02.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:02.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:02.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:02.871][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2023-10-15 23:09:02.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:02.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:02.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:02.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:02.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:02.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:02.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:02.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:02.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:02.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:02.946][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[2023-10-15 23:09:02.949][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2023-10-15 23:09:02.951][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:02.955][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2023-10-15 23:09:02.962][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:02.966][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2023-10-15 23:09:02.968][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:02.971][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:02.973][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:02.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:02.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:02.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:03.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:03.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:03.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:03.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:03.015][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.021][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.023][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.026][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.042][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:03.048][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:03.050][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.052][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.054][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:03.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:03.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.068][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:03.070][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:03.073][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.075][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.078][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:03.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:03.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.094][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:03.097][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:03.103][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.105][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:03.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:03.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.120][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:03.122][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:03.124][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.132][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.135][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:03.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:03.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.146][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:03.148][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:03.150][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.152][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.164][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:03.166][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.168][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.170][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.176][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:03.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.189][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:03.191][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:03.193][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.207][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:03.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:03.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.230][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:03.238][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:03.240][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.242][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:03.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:03.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.258][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:03.260][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:03.264][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.266][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.268][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:03.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:03.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.283][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:03.285][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:03.287][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.293][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.296][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:03.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:03.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:03.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:03.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:03.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:03.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:03.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:03.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:03.439][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2023-10-15 23:09:03.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:03.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:03.483][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:03.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:03.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:03.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:03.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:03.509][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[2023-10-15 23:09:03.511][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2023-10-15 23:09:03.519][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:03.522][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2023-10-15 23:09:03.526][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:03.529][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2023-10-15 23:09:03.533][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:03.536][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:03.539][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:03.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:03.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:03.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:03.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:03.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:03.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:03.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:03.583][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.589][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.591][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.593][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.609][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:03.611][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:03.617][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.619][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.622][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:03.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:03.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.637][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:03.640][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:03.646][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.649][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.651][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:03.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:03.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.666][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:03.668][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:03.670][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.674][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.676][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:03.679][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:03.681][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.682][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.694][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:03.697][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:03.699][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.701][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.704][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:03.707][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.709][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.712][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.720][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:03.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.740][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:03.743][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:03.746][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.748][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:03.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:03.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.763][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:03.768][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:03.770][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.776][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.779][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:03.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:03.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.790][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:03.792][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:03.794][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.795][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.799][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:03.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:03.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.813][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:03.816][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:03.818][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.820][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:03.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:03.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:03.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:03.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:03.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:03.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:03.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:03.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:03.944][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2023-10-15 23:09:03.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:03.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:03.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:03.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:03.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:03.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:03.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:04.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:04.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:04.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:04.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:04.025][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2023-10-15 23:09:04.027][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:04.031][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2023-10-15 23:09:04.034][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:04.037][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2023-10-15 23:09:04.040][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:04.042][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:04.044][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:04.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:04.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:04.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:04.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:04.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:04.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:04.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:04.088][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.095][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.097][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.099][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.115][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:04.117][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:04.122][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.124][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.126][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:04.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:04.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.141][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:04.143][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:04.145][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.149][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.152][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:04.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:04.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.172][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:04.175][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:04.177][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.181][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.184][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:04.187][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:04.189][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.191][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.198][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:04.201][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:04.203][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.205][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.214][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:04.217][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:04.220][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.222][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.228][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:04.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:04.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.242][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:04.245][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:04.292][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.294][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:04.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:04.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.314][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:04.316][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:04.319][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.321][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.327][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:04.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:04.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.341][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:04.343][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:04.345][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.347][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.352][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:04.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:04.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.361][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:04.368][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:04.370][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.372][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:04.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:04.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:04.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:04.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:04.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:04.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:04.500][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2023-10-15 23:09:04.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:04.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:04.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:04.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:04.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:04.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:04.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:04.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:04.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:04.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:04.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:04.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:04.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:04.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:04.587][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2023-10-15 23:09:04.590][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:04.593][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2023-10-15 23:09:04.603][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:04.606][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2023-10-15 23:09:04.608][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:04.611][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:04.613][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:04.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:04.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:04.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:04.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:04.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:04.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:04.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:04.655][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.660][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.662][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.664][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.677][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:04.679][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:04.687][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.689][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.692][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:04.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:04.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.703][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:04.705][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:04.710][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.712][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.714][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:04.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:04.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.728][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:04.731][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:04.738][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.741][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:04.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:04.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.757][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:04.759][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:04.761][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.765][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:04.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:04.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.785][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:04.788][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:04.792][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.795][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.798][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:04.801][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:04.809][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.811][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.814][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:04.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:04.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.840][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:04.842][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:04.844][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.849][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:04.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:04.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.864][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:04.866][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:04.868][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.870][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:04.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:04.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.888][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:04.890][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:04.892][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.894][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.899][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:04.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:04.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.907][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:04.915][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:04.917][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.919][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.921][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:04.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:04.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:04.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:04.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:04.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:04.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:04.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:04.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:04.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:04.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:04.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:04.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:05.056][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2023-10-15 23:09:05.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:05.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:05.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:05.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:05.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:05.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:05.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:05.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:05.133][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2023-10-15 23:09:05.136][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:05.141][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2023-10-15 23:09:05.148][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:05.153][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2023-10-15 23:09:05.155][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:05.163][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:05.166][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:05.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:05.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:05.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:05.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:05.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:05.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:05.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:05.215][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.217][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.225][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.227][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.245][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:05.247][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:05.249][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.257][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.260][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:05.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:05.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.276][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:05.278][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:05.281][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.290][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.292][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:05.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:05.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.304][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:05.306][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:05.308][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.310][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:05.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:05.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.337][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:05.340][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:05.342][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.344][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.356][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:05.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:05.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.370][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:05.387][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:05.390][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.393][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.400][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:05.402][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.405][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.407][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.414][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:05.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.430][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:05.433][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:05.435][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.438][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:05.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:05.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.460][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:05.464][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:05.467][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.469][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:05.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:05.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.484][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:05.487][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:05.495][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.497][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.500][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:05.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:05.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.515][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:05.518][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:05.525][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.527][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.530][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:05.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:05.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:05.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:05.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:05.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:05.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:05.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:05.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:05.678][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2023-10-15 23:09:05.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:05.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:05.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:05.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:05.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:05.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:05.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:05.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:05.759][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2023-10-15 23:09:05.761][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:05.766][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2023-10-15 23:09:05.769][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:05.773][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2023-10-15 23:09:05.775][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:05.778][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:05.780][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:05.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:05.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:05.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:05.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:05.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:05.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:05.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:05.823][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.828][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.830][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.832][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:05.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:05.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.850][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:05.855][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:05.857][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.859][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.861][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:05.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:05.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.876][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:05.878][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:05.880][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.885][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.888][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:05.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:05.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.900][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:05.902][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:05.904][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.906][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.915][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:05.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:05.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.934][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:05.941][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:05.943][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.945][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:05.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:05.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.962][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:05.970][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:05.972][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.974][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.977][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:05.982][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.984][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.986][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:05.988][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:05.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:05.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:05.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.002][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:06.004][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:06.011][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.013][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:06.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:06.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.033][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:06.035][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:06.043][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.045][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.048][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:06.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:06.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.061][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:06.063][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:06.065][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.072][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.075][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:06.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:06.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.086][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:06.088][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:06.090][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.092][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.096][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:06.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:06.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:06.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:06.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:06.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:06.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:06.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:06.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:06.236][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2023-10-15 23:09:06.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:06.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:06.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:06.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:06.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:06.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:06.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:06.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:06.310][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2023-10-15 23:09:06.312][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:06.318][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2023-10-15 23:09:06.320][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:06.323][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2023-10-15 23:09:06.326][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:06.329][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:06.332][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:06.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:06.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:06.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:06.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:06.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:06.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:06.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:06.380][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.382][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.384][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.386][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.403][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:06.405][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:06.408][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.410][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.419][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:06.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:06.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.428][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:06.435][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:06.438][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.440][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.442][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:06.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:06.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.470][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:06.477][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:06.480][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.482][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.485][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:06.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:06.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.498][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:06.502][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:06.504][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.506][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.509][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:06.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:06.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.521][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:06.524][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:06.530][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.532][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.535][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:06.537][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.543][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.546][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.549][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:06.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.560][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:06.562][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:06.564][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.570][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:06.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:06.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.584][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:06.587][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:06.589][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.594][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.597][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:06.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:06.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.608][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:06.611][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:06.613][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.617][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.620][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:06.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:06.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.632][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:06.635][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:06.637][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.645][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.648][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:06.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:06.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:06.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:06.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:06.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:06.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:06.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:06.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:06.787][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2023-10-15 23:09:06.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:06.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:06.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:06.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:06.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:06.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:06.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:06.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:06.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:06.869][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2023-10-15 23:09:06.872][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:06.880][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2023-10-15 23:09:06.885][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:06.888][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2023-10-15 23:09:06.890][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:06.893][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:06.895][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:06.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:06.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:06.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:06.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:06.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:06.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:06.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:06.940][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.942][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.944][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.946][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:06.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:06.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.960][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:06.968][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:06.970][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.972][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.975][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:06.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:06.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:06.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:06.999][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:07.001][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:07.005][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.007][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.009][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:07.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:07.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.024][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:07.027][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:07.029][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.034][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:07.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:07.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.051][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:07.053][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:07.056][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.063][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:07.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:07.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.079][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:07.083][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:07.091][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.095][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.097][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:07.100][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.104][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.107][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.110][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:07.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.122][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:07.126][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:07.129][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.131][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:07.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:07.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.147][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:07.153][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:07.155][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.157][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.160][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:07.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:07.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.175][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:07.182][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:07.185][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.186][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.189][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:07.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:07.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.203][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:07.205][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:07.211][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.214][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.216][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:07.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:07.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:07.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:07.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:07.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:07.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:07.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:07.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:07.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:07.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:07.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:07.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:07.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:07.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:07.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:07.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:07.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:07.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:07.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:07.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:07.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:07.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:07.358][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2023-10-15 23:09:07.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:07.460][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:07.472][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:07.475][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 23:09:07.477][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:07.485][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-10-15 23:09:07.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:07.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:07.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:07.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:07.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:07.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:07.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:07.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:07.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:07.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:07.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:07.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:07.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:07.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:07.608][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.TRACE[2023-10-15 23:09:07.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:07.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:07.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:07.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:07.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:07.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:07.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:07.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:07.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:07.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:07.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:07.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:07.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:07.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:07.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:07.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:07.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:07.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:07.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:07.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:07.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:07.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:07.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:07.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:07.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:07.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:07.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:07.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:07.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:07.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:07.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:07.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:07.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:07.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:07.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:07.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:08.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:08.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:08.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:08.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:08.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:08.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:08.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:08.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:08.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:08.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:08.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:08.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:08.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:08.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:08.116][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[2023-10-15 23:09:08.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:08.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:08.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:08.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:08.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:08.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:08.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:08.189][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[2023-10-15 23:09:08.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:08.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:08.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:08.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:08.248][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:08.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:08.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:08.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:08.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:08.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:08.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:08.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:08.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:08.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:08.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:08.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:08.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:08.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:08.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:08.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:08.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:08.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:08.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:08.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:08.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:08.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:08.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:08.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:08.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:08.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:08.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:08.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:08.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:08.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:08.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:08.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:08.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:08.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:08.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:08.537][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.TRACE[2023-10-15 23:09:08.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:08.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:08.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:08.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:08.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:08.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:08.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:08.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:08.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:08.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:08.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:08.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:08.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:08.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:08.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:08.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:08.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:08.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:08.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:08.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:08.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:08.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:08.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:08.777][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[2023-10-15 23:09:08.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:08.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:08.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:08.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:08.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:08.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:08.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:08.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:08.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:08.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:08.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:08.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:08.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:08.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:08.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:08.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:08.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:08.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:08.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:08.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:09.095][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:09.106][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:09.110][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2023-10-15 23:09:09.112][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:09.116][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2023-10-15 23:09:09.123][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:09.133][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:09.136][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2023-10-15 23:09:09.139][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:09.144][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2023-10-15 23:09:09.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:09.151][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:09.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:09.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:09.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:09.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:09.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:09.183][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2023-10-15 23:09:09.187][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:09.190][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2023-10-15 23:09:09.197][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:09.207][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2023-10-15 23:09:09.210][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:09.215][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:09.217][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:09.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:09.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:09.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:09.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:09.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:09.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:09.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:09.257][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:09.259][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:09.261][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.263][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:09.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:09.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.279][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:09.282][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:09.284][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.287][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.289][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:09.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:09.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.300][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:09.302][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:09.304][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.306][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.309][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:09.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:09.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.318][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:09.321][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:09.324][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.327][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:09.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:09.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.342][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:09.345][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:09.347][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.349][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.352][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:09.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:09.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.363][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:09.365][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:09.367][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.369][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.373][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:09.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:09.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.389][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:09.392][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:09.394][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.396][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.401][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:09.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:09.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.412][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.415][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.417][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.419][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.439][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:09.441][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:09.443][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.445][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.452][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:09.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:09.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.464][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:09.467][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:09.469][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.471][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.474][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:09.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:09.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.497][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:09.502][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:09.504][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.506][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.508][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:09.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:09.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:09.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:09.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:09.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:09.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:09.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:09.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:09.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:09.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:09.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:09.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:09.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:09.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:09.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:09.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:09.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:09.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:09.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:09.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:09.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:09.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:09.639][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2023-10-15 23:09:09.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:09.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:09.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:09.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:09.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:09.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:09.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:09.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:09.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:09.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:09.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:09.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:09.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:09.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:09.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:09.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:09.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:09.778][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2023-10-15 23:09:09.783][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:09.788][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2023-10-15 23:09:09.791][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:09.794][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2023-10-15 23:09:09.798][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:09.801][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:09.803][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:09.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:09.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:09.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:09.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:09.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:09.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:09.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:09.846][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:09.852][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:09.854][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.856][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:09.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:09.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.871][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:09.873][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:09.876][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.878][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.882][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:09.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:09.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.893][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:09.895][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:09.897][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.900][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.902][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:09.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:09.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.913][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:09.916][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:09.918][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.922][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:09.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:09.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.937][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:09.939][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:09.941][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.943][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:09.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:09.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.969][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:09.974][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:09.976][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.978][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.981][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:09.987][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:09.989][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:09.992][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:09.994][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:09.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:10.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.005][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.008][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.011][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.013][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.029][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:10.031][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:10.034][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.037][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:10.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:10.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.051][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:10.053][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:10.060][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.063][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.065][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:10.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:10.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.079][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:10.081][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:10.083][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.087][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.089][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:10.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:10.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:10.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:10.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:10.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:10.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:10.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:10.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:10.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:10.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:10.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:10.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:10.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:10.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:10.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:10.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:10.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:10.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:10.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:10.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:10.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:10.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:10.219][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2023-10-15 23:09:10.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:10.331][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:10.340][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:10.343][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 23:09:10.352][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:10.356][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-10-15 23:09:10.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:10.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:10.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:10.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:10.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:10.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:10.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:10.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:10.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:10.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:10.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:10.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:10.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:10.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:10.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:10.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:10.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:10.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:10.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:10.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:10.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:10.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:10.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:10.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:10.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:10.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:10.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:10.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:10.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:10.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:10.660][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.TRACE[2023-10-15 23:09:10.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:10.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:10.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:10.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:10.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:10.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:10.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:10.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:10.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:10.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:10.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:10.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:10.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:10.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:10.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:10.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:10.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:10.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:10.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:10.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:10.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:10.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:10.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:10.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:10.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:10.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:10.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:10.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:10.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:10.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:10.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:10.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:10.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:10.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:10.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:10.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:11.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:11.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:11.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:11.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:11.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:11.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:11.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:11.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:11.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:11.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:11.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:11.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:11.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:11.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:11.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:11.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:11.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:11.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:11.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:11.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:11.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:11.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:11.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:11.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:11.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:11.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:11.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:11.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:11.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:11.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:11.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:11.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:11.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:11.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:11.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:11.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:11.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:11.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:11.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:11.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:11.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:11.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:11.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:11.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:11.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:11.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:11.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:11.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:11.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:11.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:11.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:11.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:11.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:11.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:11.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:11.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:11.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:11.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:11.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:11.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:11.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:11.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:11.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:11.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:11.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:11.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:11.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:11.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:11.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:11.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:11.647][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.TRACE[2023-10-15 23:09:11.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:11.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:11.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:11.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:11.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:11.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:11.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:11.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:11.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:11.818][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:11.827][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:11.830][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-10-15 23:09:11.833][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:11.838][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-10-15 23:09:11.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:11.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:11.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:11.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:11.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:11.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:11.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:11.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:11.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:11.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:11.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:11.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:11.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:11.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:11.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:11.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:11.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:11.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:11.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:12.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:12.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:12.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:12.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:12.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:12.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:12.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:12.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:12.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:12.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:12.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:12.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:12.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:12.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:12.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:12.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:12.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:12.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:12.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:12.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:12.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:12.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:12.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:12.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:12.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:12.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:12.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:12.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:12.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:12.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:12.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:12.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:12.512][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:12.513][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.TRACE[2023-10-15 23:09:12.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:12.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:12.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:12.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:12.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:12.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.621][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:12.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:12.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:12.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:12.653][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.TRACE[2023-10-15 23:09:12.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:12.717][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:12.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:12.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:12.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:12.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:12.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:12.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:12.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:12.798][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.TRACE[2023-10-15 23:09:12.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:12.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:12.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:12.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:12.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:12.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:12.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:12.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:12.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:12.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:12.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:12.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:12.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:12.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:12.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:12.994][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:12.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:13.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:13.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:13.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:13.026][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.TRACE[2023-10-15 23:09:13.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:13.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:13.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:13.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:13.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:13.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:13.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:13.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:13.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:13.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:13.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:13.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:13.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:13.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:13.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:13.193][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.TRACE[2023-10-15 23:09:13.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:13.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.304][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-15 23:09:13.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-15 23:09:13.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 23:09:13.354][biodb::testThat]
biodb.INFO [2023-10-15 23:09:13.356][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2023-10-15 23:09:13.358][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:09:13.360][biodb::testThat]
biodb.TRACE[2023-10-15 23:09:13.372][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-15 23:09:13.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-15 23:09:13.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:13.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:13.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:13.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:13.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:13.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:13.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:13.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:13.516][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:13.526][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:13.529][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-10-15 23:09:13.537][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:13.540][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-10-15 23:09:13.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:13.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:13.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:13.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:13.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:13.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:13.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:13.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:13.628][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:13.638][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:13.641][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-10-15 23:09:13.644][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:13.647][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-10-15 23:09:13.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:13.654][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:13.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:13.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:13.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:13.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:13.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:13.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:13.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:13.725][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:13.733][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:13.739][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-10-15 23:09:13.742][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:13.745][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-10-15 23:09:13.751][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 23:09:13.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:13.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:13.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:13.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:13.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:13.785][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:13.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:13.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.815][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:13.817][private$selectFields]
biodb.TRACE[2023-10-15 23:09:13.819][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:13.821][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:13.827][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:13.830][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.834][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.836][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.839][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.842][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.844][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.847][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.853][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:13.855][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:13.857][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.859][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.861][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.864][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.868][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:13.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:13.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:13.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:13.932][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-10-15 23:09:13.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:13.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:13.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:13.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:13.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:13.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:13.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:13.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.022][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:14.029][private$selectFields]
biodb.TRACE[2023-10-15 23:09:14.031][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:14.033][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:14.035][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:14.042][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.045][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.047][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.050][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.059][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.061][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.063][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.066][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:14.075][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:14.080][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.083][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.085][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.096][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.098][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:14.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.149][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-10-15 23:09:14.152][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 23:09:14.157][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 23:09:14.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:14.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:14.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:14.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:14.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:14.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:14.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:14.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:14.490][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:14.505][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:14.520][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-10-15 23:09:14.523][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:14.526][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-10-15 23:09:14.537][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:14.549][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:14.552][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-10-15 23:09:14.555][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:14.558][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-10-15 23:09:14.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:14.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:14.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:14.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:14.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:14.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:14.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:14.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:14.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:14.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:14.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:14.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:14.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:14.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:14.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:14.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:14.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:14.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:14.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:14.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:14.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:14.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:14.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:14.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:14.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:14.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:14.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:14.863][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 23:09:14.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:14.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:14.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:14.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:14.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:14.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:14.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:14.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:14.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.021][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:15.023][private$selectFields]
biodb.TRACE[2023-10-15 23:09:15.025][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:15.027][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:15.031][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:15.033][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.036][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.039][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.043][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.045][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.048][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.050][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.052][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.059][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:15.061][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:15.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.066][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.072][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.076][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.078][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:15.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.134][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-10-15 23:09:15.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:15.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:15.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:15.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:15.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:15.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:15.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:15.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.329][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:15.331][private$selectFields]
biodb.TRACE[2023-10-15 23:09:15.334][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:15.336][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:15.339][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:15.342][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.345][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.347][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.352][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.355][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.357][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.359][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.362][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.369][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:15.400][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:15.404][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.407][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.409][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.411][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.416][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:15.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.457][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-10-15 23:09:15.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:15.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:15.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:15.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:15.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:15.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:15.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:15.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.526][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:15.528][private$selectFields]
biodb.TRACE[2023-10-15 23:09:15.530][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:15.534][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:15.536][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:15.538][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.542][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.545][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.548][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.551][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.553][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.560][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.562][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:15.564][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:15.566][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.568][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.574][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.576][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.578][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:15.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:15.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.617][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-10-15 23:09:15.619][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 23:09:15.624][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 23:09:15.647][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-15 23:09:15.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-15 23:09:15.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 23:09:15.670][biodb::testThat]
biodb.INFO [2023-10-15 23:09:15.672][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2023-10-15 23:09:15.675][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:09:15.677][biodb::testThat]
biodb.TRACE[2023-10-15 23:09:15.684][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-15 23:09:15.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-15 23:09:15.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:15.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:15.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:15.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:15.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:15.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:15.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:15.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:15.781][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:15.792][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:15.795][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-10-15 23:09:15.798][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:15.803][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-10-15 23:09:15.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:15.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:15.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:15.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:15.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:15.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:15.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:15.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:15.872][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:15.881][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:15.884][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-10-15 23:09:15.889][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:15.892][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-10-15 23:09:15.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:15.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:15.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:15.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:15.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:15.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:15.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:15.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:15.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:15.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:15.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:15.977][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:15.989][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:15.992][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-10-15 23:09:15.995][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:16.000][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-10-15 23:09:16.005][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 23:09:16.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:16.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:16.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:16.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:16.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:16.038][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:16.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:16.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.066][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:16.068][private$selectFields]
biodb.TRACE[2023-10-15 23:09:16.070][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:16.072][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:16.080][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:16.083][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.085][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.091][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.095][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.097][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.100][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.102][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.104][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.107][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:16.109][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:16.111][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.114][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.116][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.122][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.125][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:16.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.157][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-10-15 23:09:16.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:16.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:16.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:16.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:16.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:16.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:16.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:16.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.215][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:16.222][private$selectFields]
biodb.TRACE[2023-10-15 23:09:16.224][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:16.226][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:16.228][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:16.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.236][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.239][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.241][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.247][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.250][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.252][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.254][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.257][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:16.260][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:16.262][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.264][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.266][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.270][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.273][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:16.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.312][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-10-15 23:09:16.314][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 23:09:16.318][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 23:09:16.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:16.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:16.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:16.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:16.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:16.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:16.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:16.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:16.427][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:16.452][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:16.455][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-10-15 23:09:16.461][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:16.464][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-10-15 23:09:16.474][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:16.481][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:16.490][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-10-15 23:09:16.492][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:16.495][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-10-15 23:09:16.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:16.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:16.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:16.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:16.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:16.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:16.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:16.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:16.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:16.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:16.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:16.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:16.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:16.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:16.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:16.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:16.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:16.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:16.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:16.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:16.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:16.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:16.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:16.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:16.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:16.775][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 23:09:16.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:16.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:16.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:16.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:16.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:16.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:16.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:16.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.836][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:16.838][private$selectFields]
biodb.TRACE[2023-10-15 23:09:16.842][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:16.844][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:16.846][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:16.848][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.853][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.856][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.858][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.862][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.871][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.873][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:16.878][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:16.883][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.885][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.887][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.889][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.892][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:16.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.930][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-10-15 23:09:16.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:16.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:16.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:16.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:16.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:16.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:16.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:16.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:16.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:16.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:16.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.015][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:17.017][private$selectFields]
biodb.TRACE[2023-10-15 23:09:17.024][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:17.026][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:17.028][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:17.030][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.037][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.039][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.042][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.044][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.049][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.052][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.054][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.056][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:17.059][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:17.061][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.064][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.066][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.068][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.074][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:17.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.115][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-10-15 23:09:17.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:17.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:17.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:17.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:17.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:17.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:17.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:17.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.178][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:17.184][private$selectFields]
biodb.TRACE[2023-10-15 23:09:17.186][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:17.188][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:17.190][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:17.195][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.197][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.199][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.201][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.202][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.214][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.221][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.222][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.224][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:17.234][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:17.236][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.238][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.241][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.243][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.248][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:17.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.297][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-10-15 23:09:17.299][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 23:09:17.302][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 23:09:17.336][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-15 23:09:17.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-15 23:09:17.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 23:09:17.360][biodb::testThat]
biodb.INFO [2023-10-15 23:09:17.366][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2023-10-15 23:09:17.369][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:09:17.371][biodb::testThat]
biodb.TRACE[2023-10-15 23:09:17.382][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-15 23:09:17.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-15 23:09:17.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:17.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:17.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:17.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:17.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:17.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:17.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:17.500][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[2023-10-15 23:09:17.509][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:17.517][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:17.524][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-10-15 23:09:17.536][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:17.540][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-10-15 23:09:17.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:17.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:17.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:17.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:17.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:17.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:17.601][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[2023-10-15 23:09:17.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:17.659][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:17.668][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:17.671][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-10-15 23:09:17.674][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:17.685][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-10-15 23:09:17.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:17.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:17.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:17.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:17.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:17.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:17.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:17.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:17.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:17.781][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:17.790][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:17.793][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-10-15 23:09:17.824][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:17.826][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-10-15 23:09:17.831][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 23:09:17.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:17.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:17.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:17.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:17.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:17.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:17.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:17.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.886][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:17.888][private$selectFields]
biodb.TRACE[2023-10-15 23:09:17.891][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:17.896][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:17.898][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:17.901][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.903][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.905][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.909][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.911][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.915][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.917][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.925][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:17.927][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:17.929][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.931][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.938][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.940][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.942][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:17.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:17.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:17.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:17.985][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-10-15 23:09:17.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:17.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:17.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:18.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:18.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:18.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:18.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:18.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.045][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:18.053][private$selectFields]
biodb.TRACE[2023-10-15 23:09:18.055][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:18.060][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:18.062][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:18.070][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.074][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.076][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.078][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.083][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.086][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.088][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.090][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.092][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:18.098][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:18.100][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.103][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.105][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.111][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.114][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:18.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.167][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-10-15 23:09:18.169][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 23:09:18.171][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 23:09:18.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:18.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:18.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:18.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:18.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:18.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:18.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:18.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:18.347][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:18.357][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:18.359][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-10-15 23:09:18.366][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:18.369][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-10-15 23:09:18.375][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:18.387][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:18.390][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-10-15 23:09:18.396][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:18.399][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-10-15 23:09:18.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:18.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:18.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:18.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:18.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:18.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:18.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:18.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:18.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:18.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:18.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:18.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:18.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:18.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:18.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:18.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:18.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:18.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:18.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:18.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:18.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:18.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:18.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:18.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:18.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:18.636][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 23:09:18.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:18.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:18.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:18.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:18.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:18.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:18.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:18.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.711][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:18.713][private$selectFields]
biodb.TRACE[2023-10-15 23:09:18.715][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:18.724][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:18.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:18.729][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.731][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.735][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.737][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.742][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.751][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.753][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.756][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:18.758][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:18.760][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.765][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.767][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.770][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.772][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:18.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.826][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-10-15 23:09:18.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:18.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:18.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:18.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:18.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:18.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:18.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:18.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.893][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:18.896][private$selectFields]
biodb.TRACE[2023-10-15 23:09:18.900][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:18.902][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:18.905][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:18.907][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.917][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.920][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.922][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.924][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.930][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.932][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.934][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:18.937][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:18.945][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.948][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.950][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.952][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.954][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:18.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:18.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:18.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:18.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:19.001][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-10-15 23:09:19.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:19.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:19.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:19.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:19.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:19.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:19.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:19.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:19.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:19.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:19.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:19.065][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:19.067][private$selectFields]
biodb.TRACE[2023-10-15 23:09:19.074][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:09:19.076][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:09:19.078][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:19.081][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.088][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.090][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:19.092][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:19.094][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.099][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.102][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:19.104][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:19.106][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:19.108][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-10-15 23:09:19.113][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.115][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.117][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:19.119][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:19.121][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-10-15 23:09:19.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:19.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:19.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:19.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:19.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:19.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:19.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:19.159][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-10-15 23:09:19.164][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 23:09:19.166][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 23:09:19.259][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-15 23:09:19.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-15 23:09:19.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:19.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 23:09:19.285][biodb::testThat]
biodb.INFO [2023-10-15 23:09:19.287][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2023-10-15 23:09:19.289][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:09:19.291][biodb::testThat]
biodb.DEBUG[2023-10-15 23:09:19.301][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-10-15 23:09:19.303][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:19.307][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-10-15 23:09:19.315][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-10-15 23:09:19.318][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-10-15 23:09:19.320][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:19.323][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-10-15 23:09:19.326][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2023-10-15 23:09:19.328][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2023-10-15 23:09:19.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:19.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:19.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:19.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:19.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:19.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:19.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:19.375][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2023-10-15 23:09:19.384][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 23:09:19.386][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 23:09:19.388][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2023-10-15 23:09:19.918][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2023-10-15 23:09:20.539][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-10-15 23:09:20.543][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2023-10-15 23:09:20.577][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2023-10-15 23:09:20.583][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2023-10-15 23:09:20.587][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2023-10-15 23:09:20.589][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:20.592][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:20.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:20.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:20.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:20.612][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:20.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:20.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:20.618][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[2023-10-15 23:09:20.622][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:20.625][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:20.627][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.629][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:20.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:20.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.640][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:20.642][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:20.644][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.647][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.649][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:20.652][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:20.654][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.656][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.659][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:20.661][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:20.663][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.665][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.668][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:20.670][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:20.672][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.674][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.676][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:20.679][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:20.681][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.683][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.686][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:20.688][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:20.691][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.693][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.696][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:20.698][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:20.700][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.703][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.705][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:20.708][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:20.710][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.712][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.715][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:20.717][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:20.720][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.722][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.724][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:20.727][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:20.729][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.731][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:20.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:20.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:20.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:20.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:20.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:20.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:20.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:20.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:20.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:20.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:20.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:20.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:20.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:20.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:20.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:20.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:20.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:20.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:20.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:20.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:20.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:20.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:20.853][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2023-10-15 23:09:20.855][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-10-15 23:09:20.884][biodb::testThat]
biodb.INFO [2023-10-15 23:09:20.886][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-10-15 23:09:20.888][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:09:20.890][biodb::testThat]
biodb.DEBUG[2023-10-15 23:09:20.922][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2023-10-15 23:09:20.924][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2023-10-15 23:09:20.933][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2023-10-15 23:09:20.937][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2023-10-15 23:09:20.940][cch$loadFileContent] file.exist = [3]: "FALSE, TRUE, TRUE".
biodb.TRACE[2023-10-15 23:09:20.950][loadFileContents] Loaded 2 files from cache: [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2023-10-15 23:09:20.953][conn$getEntryContent] 2 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:20.955][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-10-15 23:09:20.958][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2023-10-15 23:09:20.964][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2023-10-15 23:09:21.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:21.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:21.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:21.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:21.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:21.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:21.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:21.035][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2023-10-15 23:09:21.088][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 23:09:21.092][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 23:09:21.146][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2023-10-15 23:09:21.795][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2023-10-15 23:09:22.329][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-10-15 23:09:22.333][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2023-10-15 23:09:22.341][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.TRACE[2023-10-15 23:09:22.347][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml"
biodb.DEBUG[2023-10-15 23:09:22.350][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2023-10-15 23:09:22.353][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2023-10-15 23:09:22.364][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:22.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:22.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:22.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:22.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:22.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:22.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:22.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:22.400][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:22.402][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:22.404][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.406][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:22.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:22.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.418][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:22.420][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:22.422][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.424][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.426][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:22.428][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:22.431][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.432][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.435][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:22.438][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:22.440][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.442][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.444][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:22.447][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:22.449][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.451][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.453][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:22.456][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:22.458][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.460][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.462][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:22.465][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:22.467][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.469][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.471][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:22.474][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:22.475][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.477][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.480][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:22.482][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:22.484][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.486][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.488][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:22.491][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:22.493][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.495][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.498][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:22.500][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:22.502][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.504][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:22.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:22.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:22.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:22.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:22.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:22.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:22.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:22.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:22.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:22.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:22.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:22.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:22.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:22.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:22.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:22.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:22.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:22.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:22.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:22.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:22.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:22.604][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:22.606][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:22.609][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.611][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:22.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:22.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.624][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:22.626][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:22.628][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.629][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.637][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:22.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:22.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.651][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:22.654][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:22.656][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.659][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.666][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:22.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:22.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.681][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:22.684][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:22.686][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.688][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.693][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:22.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:22.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.702][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:22.705][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:22.707][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.709][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:22.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:22.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.721][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:22.729][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:22.732][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.736][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.738][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:22.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:22.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.751][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:22.753][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:22.760][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.763][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.779][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:22.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:22.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.793][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:22.795][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:22.800][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.802][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:22.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:22.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.817][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:22.819][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:22.822][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.828][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.831][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:22.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:22.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.843][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:22.846][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:22.848][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.850][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.856][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:22.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:22.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.870][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:22.872][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:22.874][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.876][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.882][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:22.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:22.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:22.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:22.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:22.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:22.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:22.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:22.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:22.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:22.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:22.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:22.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:22.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:22.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:22.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:22.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:22.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:22.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:22.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:22.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:22.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:23.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:23.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:23.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:23.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:09:23.022][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.025][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.027][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.029][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.049][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:23.052][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:23.054][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.056][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.058][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:23.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:23.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.073][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:23.081][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:23.083][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.085][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.088][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:23.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:23.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.101][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:23.103][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:23.109][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.111][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:23.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:23.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.128][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:23.130][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:23.136][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.139][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:23.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:23.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.155][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:23.157][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:23.159][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.168][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.170][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:23.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:23.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.187][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:23.189][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:23.191][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.193][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.202][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:23.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:23.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.212][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:23.215][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:23.217][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.219][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:23.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:23.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.233][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:23.240][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:23.243][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.245][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:23.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:23.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.259][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:23.262][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:23.268][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.270][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.272][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:23.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:23.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.300][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:23.302][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:23.304][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.311][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.314][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:23.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:23.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:23.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:23.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:23.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:23.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:23.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:23.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:23.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:23.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:23.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:23.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:23.527][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2023-10-15 23:09:23.528][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-10-15 23:09:23.530][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2023-10-15 23:09:23.583][biodb::testThat]
biodb.INFO [2023-10-15 23:09:23.585][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2023-10-15 23:09:23.587][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:09:23.596][biodb::testThat]
biodb.INFO [2023-10-15 23:09:23.679][biodb::testThat]
biodb.INFO [2023-10-15 23:09:23.681][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2023-10-15 23:09:23.684][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:09:23.686][biodb::testThat]
biodb.INFO [2023-10-15 23:09:23.711][biodb::testThat]
biodb.INFO [2023-10-15 23:09:23.722][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2023-10-15 23:09:23.724][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:09:23.726][biodb::testThat]
biodb.DEBUG[2023-10-15 23:09:23.735][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:23.742][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 23:09:23.751][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 23:09:23.755][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2023-10-15 23:09:24.367][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2023-10-15 23:09:25.050][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 23:09:25.068][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2023-10-15 23:09:25.078][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2023-10-15 23:09:25.108][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:25.110][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:25.113][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:25.115][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:25.117][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:25.119][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:25.121][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:25.123][ef$get] fields variable is a list.
biodb.INFO [2023-10-15 23:09:25.126][biodb::testThat]
biodb.INFO [2023-10-15 23:09:25.128][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2023-10-15 23:09:25.130][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:09:25.132][biodb::testThat]
biodb.ERROR[2023-10-15 23:09:25.163][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2023-10-15 23:09:25.200][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2023-10-15 23:09:25.231][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-15 23:09:25.233][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-10-15 23:09:25.236][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-10-15 23:09:25.238][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-15 23:09:25.240][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:25.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:25.243][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:25.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:25.247][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-10-15 23:09:25.272][biodb::testContext]
biodb.INFO [2023-10-15 23:09:25.274][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:09:25.276][biodb::testContext] Test context - Test conversions
biodb.INFO [2023-10-15 23:09:25.278][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:09:25.283][biodb::testContext]
biodb.INFO [2023-10-15 23:09:25.288][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:09:25.298][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2023-10-15 23:09:25.310][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:09:25.313][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-15 23:09:25.315][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-15 23:09:25.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.325][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-15 23:09:25.328][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-15 23:09:25.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.334][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[2023-10-15 23:09:25.336][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-15 23:09:25.338][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-15 23:09:25.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.347][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-15 23:09:25.349][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-15 23:09:25.352][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-15 23:09:25.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.361][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-15 23:09:25.363][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-15 23:09:25.368][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-15 23:09:25.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.375][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-15 23:09:25.383][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-15 23:09:25.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.389][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[2023-10-15 23:09:25.396][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-15 23:09:25.399][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-15 23:09:25.401][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-15 23:09:25.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.412][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-15 23:09:25.414][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-15 23:09:25.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.426][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-15 23:09:25.429][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-15 23:09:25.431][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-15 23:09:25.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.444][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:09:25.449][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-15 23:09:25.451][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-15 23:09:25.467][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-15 23:09:25.470][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-15 23:09:25.472][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-15 23:09:25.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.485][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-15 23:09:25.490][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-15 23:09:25.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.499][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-15 23:09:25.507][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-15 23:09:25.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.513][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[2023-10-15 23:09:25.515][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-15 23:09:25.521][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-15 23:09:25.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.529][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-15 23:09:25.535][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-15 23:09:25.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.549][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-15 23:09:25.551][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-15 23:09:25.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.562][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:09:25.565][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-15 23:09:25.588][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-15 23:09:25.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.595][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-15 23:09:25.597][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-15 23:09:25.599][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-15 23:09:25.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:25.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:25.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:25.606][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-15 23:09:25.689][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:25.693][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-10-15 23:09:25.700][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.703][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:25.705][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.707][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:25.711][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:25.713][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:09:25.715][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:09:25.717][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:25.720][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.723][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-15 23:09:25.725][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:25.727][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:25.729][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.735][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:09:25.735][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:09:25.735][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:09:25.735][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:09:25.735][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:09:25.738][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:09:25.739][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:25.741][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:25.743][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:25.750][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:25.752][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:25.755][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:25.757][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:25.760][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:25.762][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:25.764][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:25.767][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:25.770][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-15 23:09:25.776][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:25.778][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:09:25.780][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.782][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:25.788][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.790][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:25.792][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:25.794][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:09:25.801][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:09:25.804][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:25.806][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.808][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-15 23:09:25.813][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:25.815][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:25.817][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.820][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:09:25.820][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:09:25.820][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:09:25.820][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:09:25.820][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:09:25.824][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:09:25.827][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:25.829][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:25.831][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:25.833][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:25.836][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:25.838][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:25.840][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:25.842][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:25.849][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:25.851][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:25.854][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:25.857][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-15 23:09:25.865][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.868][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-10-15 23:09:25.870][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.875][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:25.877][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.880][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:25.882][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:25.884][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:09:25.887][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:09:25.889][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:25.892][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:25.894][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-15 23:09:25.904][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:25.907][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:25.909][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.911][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:25.915][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:09:25.917][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:25.929][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:25.932][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:25.934][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:25.936][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:25.940][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:25.942][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:25.944][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:25.946][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:25.955][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:25.957][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:25.959][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-15 23:09:25.963][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.969][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:09:25.972][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.974][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:25.976][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:25.979][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:25.981][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:25.983][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:09:25.986][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:09:25.987][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:25.991][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:25.992][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-15 23:09:25.994][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:25.996][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:25.998][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:26.002][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:26.004][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:09:26.007][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:26.008][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:26.010][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:26.017][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:26.019][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:26.021][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:26.023][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:26.025][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:26.028][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:26.030][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:26.032][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:26.035][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:09:26.037][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.066][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[2023-10-15 23:09:26.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.076][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[2023-10-15 23:09:26.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.109][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[2023-10-15 23:09:26.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.122][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.DEBUG[2023-10-15 23:09:26.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.134][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[2023-10-15 23:09:26.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.149][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[2023-10-15 23:09:26.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.248][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-15 23:09:26.256][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-15 23:09:26.259][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-15 23:09:26.262][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-15 23:09:26.268][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 23:09:26.271][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-15 23:09:26.274][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-15 23:09:26.282][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-15 23:09:26.285][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-15 23:09:26.288][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-15 23:09:26.291][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 23:09:26.296][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-15 23:09:26.299][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-15 23:09:26.303][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-15 23:09:26.308][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-15 23:09:26.311][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 23:09:26.314][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-15 23:09:26.320][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-15 23:09:26.324][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 23:09:26.327][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-15 23:09:26.333][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-15 23:09:26.336][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-15 23:09:26.340][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-15 23:09:26.356][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-15 23:09:26.360][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-15 23:09:26.364][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-15 23:09:26.369][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-15 23:09:26.372][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-15 23:09:26.375][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-15 23:09:26.384][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-15 23:09:26.387][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-15 23:09:26.391][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-15 23:09:26.397][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-15 23:09:26.400][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-15 23:09:26.404][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-15 23:09:26.409][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-15 23:09:26.414][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-15 23:09:26.417][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-15 23:09:26.424][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-15 23:09:26.428][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-15 23:09:26.434][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-15 23:09:26.438][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-15 23:09:26.441][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-15 23:09:26.446][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-15 23:09:26.450][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-15 23:09:26.453][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-15 23:09:26.459][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-15 23:09:26.463][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-15 23:09:26.466][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-15 23:09:26.472][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-15 23:09:26.476][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-15 23:09:26.479][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-15 23:09:26.485][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-15 23:09:26.488][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-15 23:09:26.492][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-15 23:09:26.497][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-15 23:09:26.501][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-15 23:09:26.504][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-15 23:09:26.511][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-15 23:09:26.514][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-15 23:09:26.518][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-15 23:09:26.527][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-15 23:09:26.530][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-15 23:09:26.534][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-15 23:09:26.540][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-15 23:09:26.543][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-15 23:09:26.547][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 23:09:26.551][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 23:09:26.555][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-15 23:09:26.558][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-15 23:09:26.563][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-15 23:09:26.567][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-15 23:09:26.570][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-15 23:09:26.577][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-15 23:09:26.580][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-15 23:09:26.584][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-15 23:09:26.588][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-15 23:09:26.591][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-15 23:09:26.594][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-15 23:09:26.600][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-15 23:09:26.603][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-15 23:09:26.607][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-15 23:09:26.614][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-15 23:09:26.618][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-15 23:09:26.622][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:09:26.627][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:09:26.629][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.633][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.635][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[2023-10-15 23:09:26.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.653][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[2023-10-15 23:09:26.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.707][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.DEBUG[2023-10-15 23:09:26.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.750][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[2023-10-15 23:09:26.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.900][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[2023-10-15 23:09:26.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.934][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.DEBUG[2023-10-15 23:09:26.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.954][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[2023-10-15 23:09:26.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:26.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:26.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:26.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:26.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:26.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:26.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:26.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:27.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:27.009][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-10-15 23:09:27.012][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-10-15 23:09:27.020][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:27.022][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-15 23:09:27.025][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:27.027][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:27.030][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:27.036][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:27.038][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:27.041][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-10-15 23:09:27.050][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-10-15 23:09:27.052][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:27.055][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:27.057][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-10-15 23:09:27.062][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:27.065][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-10-15 23:09:27.065][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-10-15 23:09:27.065][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-10-15 23:09:27.065][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-10-15 23:09:27.065][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-10-15 23:09:27.065][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-10-15 23:09:27.065][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-10-15 23:09:27.065][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-10-15 23:09:27.065][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-10-15 23:09:27.065][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-10-15 23:09:27.065][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-10-15 23:09:27.068][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:27.070][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:09:27.070][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:09:27.070][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:09:27.078][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-10-15 23:09:27.080][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:27.082][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:27.084][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:27.086][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:27.091][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:27.093][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:27.096][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-10-15 23:09:27.096][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-10-15 23:09:27.098][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:27.105][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:27.107][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:27.109][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-10-15 23:09:27.109][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-10-15 23:09:27.113][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 23:09:27.121][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 23:09:27.124][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-10-15 23:09:27.130][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 23:09:27.135][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 23:09:27.138][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 23:09:27.149][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-10-15 23:09:27.151][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-10-15 23:09:27.157][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-10-15 23:09:27.160][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-10-15 23:09:27.163][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 23:09:27.167][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 23:09:27.173][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-10-15 23:09:27.175][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-10-15 23:09:27.178][biodb::testThat]
biodb.INFO [2023-10-15 23:09:27.184][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2023-10-15 23:09:27.186][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:09:27.188][biodb::testThat]
biodb.DEBUG[2023-10-15 23:09:27.198][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-10-15 23:09:27.210][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:27.213][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-10-15 23:09:27.216][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:27.221][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-10-15 23:09:27.228][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:27.240][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:27.243][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-10-15 23:09:27.248][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:27.252][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-10-15 23:09:27.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:27.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:27.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:27.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:27.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:27.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:27.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:27.296][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:27.304][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:27.314][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-10-15 23:09:27.317][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:27.320][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-10-15 23:09:27.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:27.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:27.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:27.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:27.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:27.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:27.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:27.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:27.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:27.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:27.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:27.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:27.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:27.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:27.482][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:27.491][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:27.494][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-10-15 23:09:27.497][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:27.503][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-10-15 23:09:27.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:27.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:27.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:27.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:27.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:27.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:27.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:27.544][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:27.552][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:27.559][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-10-15 23:09:27.562][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:27.565][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-10-15 23:09:27.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:27.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:27.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:27.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:27.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:27.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:27.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:27.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:27.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:27.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:27.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:27.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:27.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:27.641][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[2023-10-15 23:09:27.659][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:27.673][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:27.676][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-10-15 23:09:27.679][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:27.691][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-10-15 23:09:27.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:27.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:27.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:27.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:27.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:27.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:27.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:27.744][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:27.751][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:27.763][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-10-15 23:09:27.766][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:27.769][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-10-15 23:09:27.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:27.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:27.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:27.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:27.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:27.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:27.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:27.828][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:27.836][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:27.846][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2023-10-15 23:09:27.856][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:27.860][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2023-10-15 23:09:27.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:27.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:27.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:27.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:27.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:27.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:27.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-10-15 23:09:27.958][biodb::testThat]
biodb.INFO [2023-10-15 23:09:27.960][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2023-10-15 23:09:27.962][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:09:27.964][biodb::testThat]
biodb.DEBUG[2023-10-15 23:09:27.976][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:27.989][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-15 23:09:27.992][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-15 23:09:28.002][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2023-10-15 23:09:28.526][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2023-10-15 23:09:29.073][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-15 23:09:29.078][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2023-10-15 23:09:29.087][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2023-10-15 23:09:29.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:29.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:29.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:29.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:29.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:29.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.122][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:29.130][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:29.133][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2023-10-15 23:09:29.136][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:29.139][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2023-10-15 23:09:29.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:29.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:29.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:29.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:29.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:29.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-10-15 23:09:29.177][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-15 23:09:29.180][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-10-15 23:09:29.182][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-10-15 23:09:29.184][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-15 23:09:29.186][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:29.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:29.190][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:29.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:29.193][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-10-15 23:09:29.203][biodb::testContext]
biodb.INFO [2023-10-15 23:09:29.205][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:09:29.207][biodb::testContext] Test context - Test web services
biodb.INFO [2023-10-15 23:09:29.209][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:09:29.211][biodb::testContext]
biodb.INFO [2023-10-15 23:09:29.215][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:09:29.219][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2023-10-15 23:09:29.227][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:09:29.229][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-15 23:09:29.231][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-15 23:09:29.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.239][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-15 23:09:29.242][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-15 23:09:29.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.250][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-15 23:09:29.252][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-15 23:09:29.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.260][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-15 23:09:29.263][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-15 23:09:29.265][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-15 23:09:29.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.273][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-15 23:09:29.275][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-15 23:09:29.278][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-15 23:09:29.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.286][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-15 23:09:29.292][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-15 23:09:29.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.300][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-15 23:09:29.307][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-15 23:09:29.310][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-15 23:09:29.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.320][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-15 23:09:29.322][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-15 23:09:29.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.331][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-15 23:09:29.333][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-15 23:09:29.335][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-15 23:09:29.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.344][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:09:29.346][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-15 23:09:29.348][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-15 23:09:29.350][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-15 23:09:29.352][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-15 23:09:29.354][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-15 23:09:29.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.361][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-15 23:09:29.364][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-15 23:09:29.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.370][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[2023-10-15 23:09:29.372][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-15 23:09:29.394][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-15 23:09:29.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.404][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-15 23:09:29.410][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-15 23:09:29.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.422][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-15 23:09:29.426][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-15 23:09:29.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.438][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-15 23:09:29.441][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-15 23:09:29.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.453][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:09:29.455][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-15 23:09:29.476][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-15 23:09:29.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.483][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-15 23:09:29.485][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-15 23:09:29.488][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-15 23:09:29.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:29.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:29.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:29.495][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-15 23:09:29.509][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:29.512][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-10-15 23:09:29.514][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.516][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:29.520][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.522][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:29.524][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:29.527][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:09:29.530][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:09:29.532][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:29.534][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.537][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-15 23:09:29.539][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:29.548][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.551][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.553][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:09:29.553][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:09:29.553][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:09:29.553][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:09:29.553][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:09:29.556][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:09:29.562][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:29.565][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:29.567][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:29.569][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:29.573][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:29.575][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:29.578][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.580][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:29.582][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:29.584][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:29.586][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.589][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-15 23:09:29.595][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:29.598][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:09:29.600][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.602][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:29.604][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.611][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:29.613][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:29.615][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:09:29.617][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:09:29.622][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:29.625][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.628][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-15 23:09:29.630][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:29.633][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.636][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.638][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:09:29.638][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:09:29.638][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:09:29.638][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:09:29.638][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:09:29.641][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:09:29.644][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:29.647][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:29.650][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:29.652][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:29.655][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:29.660][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:29.663][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.665][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:29.667][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:29.672][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:29.675][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.678][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-15 23:09:29.683][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.687][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-10-15 23:09:29.689][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.692][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:29.694][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.698][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:29.700][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:29.702][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:09:29.705][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:09:29.710][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:29.712][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:29.715][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-15 23:09:29.718][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:29.722][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.725][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.727][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.729][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:09:29.731][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:29.738][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:29.741][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:29.743][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:29.745][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:29.750][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:29.753][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.755][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:29.757][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:29.759][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:29.764][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.767][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-15 23:09:29.770][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.775][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:09:29.778][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.780][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:29.782][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.784][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:29.789][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:29.791][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:09:29.795][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:09:29.798][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:29.807][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:29.809][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-15 23:09:29.812][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:29.814][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.820][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:29.823][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.825][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:09:29.827][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:29.829][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:29.835][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:29.838][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:29.840][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:29.842][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:29.849][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.852][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:29.853][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:29.856][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:29.858][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:29.864][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:09:29.866][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.328][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[2023-10-15 23:09:30.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.377][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[2023-10-15 23:09:30.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.482][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.DEBUG[2023-10-15 23:09:30.484][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-15 23:09:30.491][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-15 23:09:30.495][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-15 23:09:30.498][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-15 23:09:30.506][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 23:09:30.509][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-15 23:09:30.512][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-15 23:09:30.518][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-15 23:09:30.521][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-15 23:09:30.524][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-15 23:09:30.526][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 23:09:30.534][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-15 23:09:30.537][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-15 23:09:30.541][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-15 23:09:30.549][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-15 23:09:30.552][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 23:09:30.555][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-15 23:09:30.560][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-15 23:09:30.563][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 23:09:30.566][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-15 23:09:30.572][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-15 23:09:30.576][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-15 23:09:30.579][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-15 23:09:30.583][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-15 23:09:30.587][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-15 23:09:30.590][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-15 23:09:30.598][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-15 23:09:30.601][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-15 23:09:30.606][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-15 23:09:30.614][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-15 23:09:30.617][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-15 23:09:30.621][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-15 23:09:30.632][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-15 23:09:30.635][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-15 23:09:30.638][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-15 23:09:30.646][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-15 23:09:30.649][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-15 23:09:30.652][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-15 23:09:30.663][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-15 23:09:30.666][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-15 23:09:30.670][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-15 23:09:30.681][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-15 23:09:30.685][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-15 23:09:30.688][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-15 23:09:30.697][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-15 23:09:30.701][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-15 23:09:30.705][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-15 23:09:30.712][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-15 23:09:30.716][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-15 23:09:30.719][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-15 23:09:30.729][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-15 23:09:30.733][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-15 23:09:30.736][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-15 23:09:30.748][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-15 23:09:30.752][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-15 23:09:30.756][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-15 23:09:30.765][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-15 23:09:30.769][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-15 23:09:30.772][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-15 23:09:30.780][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-15 23:09:30.784][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-15 23:09:30.788][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-15 23:09:30.792][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-15 23:09:30.795][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-15 23:09:30.802][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-15 23:09:30.806][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-15 23:09:30.810][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 23:09:30.817][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 23:09:30.820][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-15 23:09:30.827][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-15 23:09:30.832][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-15 23:09:30.836][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-15 23:09:30.841][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-15 23:09:30.845][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-15 23:09:30.848][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-15 23:09:30.855][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-15 23:09:30.859][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-15 23:09:30.863][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-15 23:09:30.872][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-15 23:09:30.875][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-15 23:09:30.883][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-15 23:09:30.890][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-15 23:09:30.899][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-15 23:09:30.918][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-15 23:09:30.922][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:09:30.925][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:09:30.957][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.962][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.964][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[2023-10-15 23:09:30.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:30.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:30.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:30.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:30.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:30.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:30.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:30.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.305][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[2023-10-15 23:09:31.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.360][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[2023-10-15 23:09:31.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.382][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-10-15 23:09:31.386][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-10-15 23:09:31.392][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:31.394][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-15 23:09:31.397][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:31.399][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:31.402][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:31.404][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:31.406][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:31.409][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-10-15 23:09:31.411][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-10-15 23:09:31.414][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:31.417][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:31.419][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-10-15 23:09:31.423][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:31.428][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-10-15 23:09:31.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-10-15 23:09:31.428][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-10-15 23:09:31.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-10-15 23:09:31.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-10-15 23:09:31.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-10-15 23:09:31.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-10-15 23:09:31.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-10-15 23:09:31.428][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-10-15 23:09:31.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-10-15 23:09:31.428][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-10-15 23:09:31.431][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:31.433][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:09:31.433][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:09:31.433][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:09:31.436][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-10-15 23:09:31.440][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:31.442][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:31.444][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:31.446][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:31.447][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:31.451][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:31.453][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-10-15 23:09:31.453][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-10-15 23:09:31.455][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:31.457][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:31.459][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:31.464][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-10-15 23:09:31.464][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-10-15 23:09:31.467][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 23:09:31.470][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 23:09:31.477][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-10-15 23:09:31.482][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 23:09:31.495][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 23:09:31.499][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 23:09:31.517][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-10-15 23:09:31.522][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-10-15 23:09:31.524][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-10-15 23:09:31.543][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-10-15 23:09:31.546][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 23:09:31.548][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 23:09:31.554][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-10-15 23:09:31.570][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-10-15 23:09:31.573][biodb::testThat]
biodb.INFO [2023-10-15 23:09:31.575][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2023-10-15 23:09:31.578][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:09:31.585][biodb::testThat]
biodb.DEBUG[2023-10-15 23:09:31.592][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-10-15 23:09:31.609][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:31.612][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-10-15 23:09:31.622][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:31.625][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-10-15 23:09:31.639][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:31.647][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:31.649][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2023-10-15 23:09:31.652][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:31.655][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2023-10-15 23:09:31.674][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-15 23:09:31.679][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-10-15 23:09:31.682][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-10-15 23:09:31.684][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-15 23:09:31.686][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:31.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:31.692][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:31.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:31.696][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-10-15 23:09:31.708][biodb::testContext]
biodb.INFO [2023-10-15 23:09:31.710][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:09:31.720][biodb::testContext] Test context - Non regression tests
biodb.INFO [2023-10-15 23:09:31.722][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:09:31.724][biodb::testContext]
biodb.INFO [2023-10-15 23:09:31.741][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:09:31.745][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2023-10-15 23:09:31.754][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:09:31.757][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-15 23:09:31.759][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-15 23:09:31.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.774][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-15 23:09:31.777][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-15 23:09:31.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.788][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-15 23:09:31.793][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-15 23:09:31.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.802][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-15 23:09:31.809][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-15 23:09:31.812][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-15 23:09:31.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.825][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-15 23:09:31.827][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-15 23:09:31.830][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-15 23:09:31.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.841][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-15 23:09:31.851][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-15 23:09:31.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.861][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-15 23:09:31.864][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-15 23:09:31.867][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-15 23:09:31.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.879][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-15 23:09:31.881][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-15 23:09:31.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.895][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-15 23:09:31.897][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-15 23:09:31.900][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-15 23:09:31.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.909][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[2023-10-15 23:09:31.911][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:09:31.913][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-15 23:09:31.917][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-15 23:09:31.920][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-15 23:09:31.922][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-15 23:09:31.925][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-15 23:09:31.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.936][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-15 23:09:31.942][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-15 23:09:31.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.955][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-15 23:09:31.958][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-15 23:09:31.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.973][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-15 23:09:31.975][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-15 23:09:31.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:31.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:31.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:31.988][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-15 23:09:31.991][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-15 23:09:31.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.005][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-15 23:09:32.011][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-15 23:09:32.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.020][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:09:32.026][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-15 23:09:32.055][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-15 23:09:32.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.066][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-15 23:09:32.069][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-15 23:09:32.071][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-15 23:09:32.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.083][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-15 23:09:32.087][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:32.089][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-10-15 23:09:32.092][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.094][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:32.096][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.099][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:32.101][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:32.103][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:09:32.105][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:09:32.108][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:32.110][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.113][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-15 23:09:32.115][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:32.117][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.120][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.134][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:09:32.134][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:09:32.134][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:09:32.134][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:09:32.134][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:09:32.136][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:09:32.139][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:32.141][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:32.147][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:32.150][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:32.152][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:32.154][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:32.165][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.168][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:32.170][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:32.172][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:32.174][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.184][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-15 23:09:32.188][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:32.191][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:09:32.196][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.198][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:32.200][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.202][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:32.205][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:32.209][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:09:32.211][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:09:32.213][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:32.215][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.220][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-15 23:09:32.223][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:32.225][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.228][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.233][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:09:32.233][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:09:32.233][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:09:32.233][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:09:32.233][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:09:32.236][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:09:32.238][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:32.240][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:32.245][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:32.248][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:32.251][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:32.253][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:32.259][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.262][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:32.264][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:32.267][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:32.270][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.273][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-15 23:09:32.278][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.285][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-10-15 23:09:32.287][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.290][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:32.292][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.298][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:32.300][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:32.303][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:09:32.306][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:09:32.310][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:32.312][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:32.315][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-15 23:09:32.319][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:32.321][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.324][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.326][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.331][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:09:32.334][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:32.336][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:32.339][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:32.341][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:32.343][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:32.346][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:32.349][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.356][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:32.358][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:32.361][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:32.363][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.367][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-15 23:09:32.381][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.383][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:09:32.386][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.390][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:32.393][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.396][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:32.398][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:32.403][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:09:32.405][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:09:32.407][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:32.409][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:32.412][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-15 23:09:32.417][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:32.419][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.421][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:32.423][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.430][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:09:32.432][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:32.434][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:32.436][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:32.440][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:32.443][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:32.445][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:32.448][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.451][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:32.458][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:32.460][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:32.462][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:09:32.465][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:09:32.470][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.509][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[2023-10-15 23:09:32.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.570][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[2023-10-15 23:09:32.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.655][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[2023-10-15 23:09:32.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.681][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[2023-10-15 23:09:32.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:32.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:32.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:32.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:32.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:32.695][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-15 23:09:32.698][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-15 23:09:32.703][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-15 23:09:32.706][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-15 23:09:32.710][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 23:09:32.715][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-15 23:09:32.718][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-15 23:09:32.721][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-15 23:09:32.724][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-15 23:09:32.727][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-15 23:09:32.730][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 23:09:32.736][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-15 23:09:32.739][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-15 23:09:32.743][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-15 23:09:32.749][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-15 23:09:32.753][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 23:09:32.756][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-15 23:09:32.760][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-15 23:09:32.763][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 23:09:32.767][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-15 23:09:32.773][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-15 23:09:32.776][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-15 23:09:32.780][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-15 23:09:32.783][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-15 23:09:32.788][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-15 23:09:32.791][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-15 23:09:32.795][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-15 23:09:32.802][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-15 23:09:32.805][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-15 23:09:32.808][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-15 23:09:32.814][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-15 23:09:32.817][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-15 23:09:32.820][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-15 23:09:32.825][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-15 23:09:32.828][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-15 23:09:32.831][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-15 23:09:32.836][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-15 23:09:32.839][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-15 23:09:32.842][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-15 23:09:32.845][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-15 23:09:32.848][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-15 23:09:32.851][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-15 23:09:32.858][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-15 23:09:32.861][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-15 23:09:32.864][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-15 23:09:32.867][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-15 23:09:32.872][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-15 23:09:32.875][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-15 23:09:32.879][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-15 23:09:32.884][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-15 23:09:32.887][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-15 23:09:32.891][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-15 23:09:32.897][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-15 23:09:32.900][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-15 23:09:32.903][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-15 23:09:32.909][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-15 23:09:32.912][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-15 23:09:32.915][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-15 23:09:32.920][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-15 23:09:32.924][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-15 23:09:32.927][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-15 23:09:32.934][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-15 23:09:32.938][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-15 23:09:32.941][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-15 23:09:32.950][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-15 23:09:32.954][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-15 23:09:32.957][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 23:09:32.960][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 23:09:32.964][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-15 23:09:32.972][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-15 23:09:32.975][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-15 23:09:32.978][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-15 23:09:32.983][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-15 23:09:32.986][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-15 23:09:32.989][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-15 23:09:32.994][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-15 23:09:32.998][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-15 23:09:33.002][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-15 23:09:33.008][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-15 23:09:33.011][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-15 23:09:33.015][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-15 23:09:33.022][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-15 23:09:33.025][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-15 23:09:33.028][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-15 23:09:33.032][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:09:33.036][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:09:33.038][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.042][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.149][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[2023-10-15 23:09:33.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.322][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[2023-10-15 23:09:33.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:09:33.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:09:33.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.360][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[2023-10-15 23:09:33.364][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-10-15 23:09:33.369][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-10-15 23:09:33.373][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:33.376][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-15 23:09:33.378][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:33.382][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:09:33.385][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:33.388][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:09:33.391][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:33.396][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-10-15 23:09:33.398][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-10-15 23:09:33.401][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:09:33.403][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:33.408][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-10-15 23:09:33.411][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:09:33.413][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-10-15 23:09:33.413][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-10-15 23:09:33.413][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-10-15 23:09:33.413][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-10-15 23:09:33.413][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-10-15 23:09:33.413][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-10-15 23:09:33.413][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-10-15 23:09:33.413][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-10-15 23:09:33.413][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-10-15 23:09:33.413][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-10-15 23:09:33.413][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-10-15 23:09:33.416][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-15 23:09:33.420][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:09:33.420][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:09:33.420][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:09:33.423][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-10-15 23:09:33.425][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:33.427][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:33.433][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:09:33.438][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:09:33.441][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:09:33.443][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:09:33.448][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-10-15 23:09:33.448][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-10-15 23:09:33.450][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:09:33.452][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:09:33.455][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-15 23:09:33.457][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-10-15 23:09:33.457][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-10-15 23:09:33.463][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 23:09:33.466][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 23:09:33.470][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-10-15 23:09:33.480][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 23:09:33.483][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 23:09:33.489][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 23:09:33.497][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-10-15 23:09:33.502][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-10-15 23:09:33.505][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-10-15 23:09:33.508][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-10-15 23:09:33.511][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 23:09:33.518][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-15 23:09:33.521][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-10-15 23:09:33.523][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-10-15 23:09:33.529][biodb::testThat]
biodb.INFO [2023-10-15 23:09:33.531][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2023-10-15 23:09:33.534][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:09:33.536][biodb::testThat]
biodb.DEBUG[2023-10-15 23:09:33.548][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-10-15 23:09:33.558][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:33.561][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-10-15 23:09:33.565][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:33.571][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-10-15 23:09:33.580][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-10-15 23:09:33.590][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:09:33.593][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2023-10-15 23:09:33.596][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:33.599][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2023-10-15 23:09:33.612][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2023-10-15 23:09:33.614][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:09:33.620][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2023-10-15 23:09:33.623][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:09:33.627][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2023-10-15 23:09:33.631][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:09:33.634][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:09:33.637][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-10-15 23:09:33.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:09:33.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:33.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:33.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:33.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:33.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:33.674][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.TRACE[2023-10-15 23:09:33.683][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:33.686][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:33.688][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.690][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:33.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:33.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.708][ef$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:33.710][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:33.713][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.715][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.723][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-10-15 23:09:33.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-10-15 23:09:33.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.737][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:33.740][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:33.742][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.750][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.753][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:09:33.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:09:33.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.766][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-15 23:09:33.769][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-15 23:09:33.771][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.776][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.780][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-15 23:09:33.782][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-15 23:09:33.784][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.789][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.792][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:33.796][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:33.798][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.804][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.807][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:33.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:09:33.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.818][ef$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:33.820][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:33.822][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.824][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.830][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-10-15 23:09:33.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:09:33.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.842][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:33.845][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:33.847][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.849][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:33.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:09:33.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.865][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:33.870][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:33.873][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.875][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.882][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:09:33.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:09:33.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.893][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:33.895][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:33.897][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.899][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.905][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-10-15 23:09:33.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-10-15 23:09:33.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.918][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:33.920][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:33.922][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.924][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.932][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-15 23:09:33.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-15 23:09:33.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:33.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:33.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:33.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:33.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:33.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:33.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:09:33.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:09:33.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:33.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:33.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:33.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:34.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:34.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:34.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:34.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:34.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:34.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:34.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:34.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:34.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:34.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:34.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:34.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:34.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:34.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:34.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:34.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:34.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:34.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:09:34.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:09:34.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:09:34.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:09:34.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:09:34.071][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2023-10-15 23:09:34.086][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-15 23:09:34.088][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-10-15 23:09:34.094][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-10-15 23:09:34.096][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-15 23:09:34.098][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:09:34.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:09:34.102][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:09:34.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:09:34.110][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:09:34.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 342 ]
>
> proc.time()
user system elapsed
34.016 1.322 55.312
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 4.591 | 1.162 | 14.821 | |
| ChebiEntry | 0.787 | 0.021 | 1.009 | |