Pierrick Roger
| Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: RELEASE_3_16 |
| git_last_commit: 4525e08 |
| git_last_commit_date: 2022-11-01 11:25:43 -0400 (Tue, 01 Nov 2022) |
| Back to Multiple platform build/check report for BioC 3.16: simplified long |
|
This page was generated on 2023-04-12 11:06:00 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
| lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
|
To the developers/maintainers of the biodbChebi package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 180/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.4.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: biodbChebi |
| Version: 1.4.0 |
| 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_1.4.0.tar.gz |
| StartedAt: 2023-04-10 19:02:53 -0400 (Mon, 10 Apr 2023) |
| EndedAt: 2023-04-10 19:04:21 -0400 (Mon, 10 Apr 2023) |
| EllapsedTime: 87.3 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_1.4.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/biodbChebi.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.4.0’
* 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 2.277 0.705 5.491
* 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/4.2/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 4.2.3 (2023-03-15) -- "Shortstop Beagle"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (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 [2023-04-10 19:03:45.065][biodb::testContext]
biodb.INFO [2023-04-10 19:03:45.089][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 19:03:45.091][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-04-10 19:03:45.092][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 19:03:45.094][biodb::testContext]
biodb.INFO [2023-04-10 19:03:45.102][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.6.1.
biodb.DEBUG[2023-04-10 19:03:45.105][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2023-04-10 19:03:45.115][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 19:03:45.117][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-04-10 19:03:45.119][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-04-10 19:03:45.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.124][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-04-10 19:03:45.147][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-04-10 19:03:45.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.151][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-04-10 19:03:45.152][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-04-10 19:03:45.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.157][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-04-10 19:03:45.158][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-04-10 19:03:45.159][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-04-10 19:03:45.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.163][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-04-10 19:03:45.164][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-04-10 19:03:45.165][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-04-10 19:03:45.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.169][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-04-10 19:03:45.170][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-04-10 19:03:45.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.174][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-04-10 19:03:45.175][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-04-10 19:03:45.176][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-04-10 19:03:45.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.181][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-04-10 19:03:45.183][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-04-10 19:03:45.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.185][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[2023-04-10 19:03:45.186][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-04-10 19:03:45.187][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-04-10 19:03:45.188][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-04-10 19:03:45.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.193][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-04-10 19:03:45.194][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-04-10 19:03:45.195][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-04-10 19:03:45.196][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-04-10 19:03:45.198][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-04-10 19:03:45.199][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-04-10 19:03:45.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.204][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-04-10 19:03:45.205][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-04-10 19:03:45.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.210][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-04-10 19:03:45.212][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-04-10 19:03:45.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.217][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-04-10 19:03:45.218][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-04-10 19:03:45.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.222][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-04-10 19:03:45.223][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-04-10 19:03:45.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.228][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-04-10 19:03:45.229][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-04-10 19:03:45.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.232][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-04-10 19:03:45.233][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-04-10 19:03:45.257][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-04-10 19:03:45.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.262][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-04-10 19:03:45.263][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-04-10 19:03:45.265][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-04-10 19:03:45.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.272][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-04-10 19:03:45.323][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.338][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-04-10 19:03:45.339][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.340][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:03:45.341][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.342][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.344][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.345][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.346][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 19:03:45.347][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:03:45.348][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.349][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-04-10 19:03:45.349][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:03:45.350][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.351][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.352][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 19:03:45.352][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 19:03:45.352][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 19:03:45.352][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 19:03:45.352][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 19:03:45.354][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:03:45.355][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:03:45.356][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:03:45.357][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:03:45.358][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:03:45.358][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:03:45.359][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.361][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.362][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:03:45.362][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:03:45.363][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.364][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.365][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-04-10 19:03:45.367][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.368][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 19:03:45.368][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.369][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:03:45.370][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.371][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.372][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.373][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.374][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 19:03:45.374][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:03:45.375][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.377][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-04-10 19:03:45.378][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:03:45.379][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.379][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.380][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 19:03:45.380][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 19:03:45.380][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 19:03:45.380][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 19:03:45.380][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 19:03:45.381][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:03:45.382][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:03:45.383][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:03:45.384][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:03:45.385][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:03:45.386][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:03:45.387][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.388][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.389][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:03:45.390][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:03:45.391][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.392][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.393][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-04-10 19:03:45.395][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.396][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-04-10 19:03:45.397][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.398][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:03:45.398][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.400][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.400][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.401][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.402][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 19:03:45.403][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:03:45.404][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.405][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-04-10 19:03:45.406][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:03:45.407][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.408][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.409][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.409][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:03:45.410][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:03:45.411][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:03:45.412][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:03:45.413][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:03:45.413][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:03:45.414][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.415][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.416][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:03:45.417][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:03:45.417][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.418][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.419][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-04-10 19:03:45.421][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.422][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 19:03:45.423][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.424][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:03:45.425][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.426][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.427][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.428][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.429][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 19:03:45.430][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:03:45.431][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.432][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-04-10 19:03:45.432][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:03:45.434][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.435][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.436][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.437][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:03:45.439][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:03:45.439][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:03:45.440][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:03:45.441][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:03:45.442][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:03:45.443][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.444][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.445][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:03:45.446][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:03:45.446][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.447][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:03:45.451][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 19:03:45.452][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.479][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[2023-04-10 19:03:45.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.483][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[2023-04-10 19:03:45.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.525][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-04-10 19:03:45.529][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-04-10 19:03:45.531][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-04-10 19:03:45.532][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-04-10 19:03:45.533][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-04-10 19:03:45.535][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-04-10 19:03:45.536][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-04-10 19:03:45.537][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-04-10 19:03:45.539][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-04-10 19:03:45.540][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-04-10 19:03:45.541][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-04-10 19:03:45.543][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-04-10 19:03:45.544][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-04-10 19:03:45.545][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-04-10 19:03:45.553][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-04-10 19:03:45.573][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-04-10 19:03:45.575][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-04-10 19:03:45.590][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-04-10 19:03:45.608][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-04-10 19:03:45.614][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-04-10 19:03:45.632][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-04-10 19:03:45.634][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-04-10 19:03:45.636][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-04-10 19:03:45.655][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-04-10 19:03:45.657][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-04-10 19:03:45.659][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-04-10 19:03:45.679][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-04-10 19:03:45.680][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-04-10 19:03:45.682][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-04-10 19:03:45.683][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-04-10 19:03:45.685][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-04-10 19:03:45.705][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-04-10 19:03:45.707][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-04-10 19:03:45.709][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-04-10 19:03:45.711][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-04-10 19:03:45.713][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-04-10 19:03:45.714][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-04-10 19:03:45.716][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-04-10 19:03:45.717][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-04-10 19:03:45.719][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-04-10 19:03:45.720][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-04-10 19:03:45.722][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-04-10 19:03:45.723][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-04-10 19:03:45.724][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-04-10 19:03:45.726][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-04-10 19:03:45.727][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-04-10 19:03:45.728][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-04-10 19:03:45.729][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-04-10 19:03:45.731][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-04-10 19:03:45.732][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-04-10 19:03:45.733][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-04-10 19:03:45.734][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-04-10 19:03:45.735][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-04-10 19:03:45.736][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-04-10 19:03:45.738][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-04-10 19:03:45.739][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-04-10 19:03:45.740][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-04-10 19:03:45.741][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-04-10 19:03:45.742][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-04-10 19:03:45.743][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-04-10 19:03:45.744][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-04-10 19:03:45.746][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-04-10 19:03:45.747][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-04-10 19:03:45.748][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-04-10 19:03:45.749][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-04-10 19:03:45.750][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-04-10 19:03:45.751][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-04-10 19:03:45.753][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-04-10 19:03:45.754][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-04-10 19:03:45.755][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-04-10 19:03:45.756][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-04-10 19:03:45.757][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-04-10 19:03:45.758][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-04-10 19:03:45.759][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-04-10 19:03:45.760][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-04-10 19:03:45.762][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-04-10 19:03:45.763][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-04-10 19:03:45.764][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-04-10 19:03:45.765][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-04-10 19:03:45.766][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-04-10 19:03:45.767][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-04-10 19:03:45.768][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-04-10 19:03:45.769][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-04-10 19:03:45.774][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-04-10 19:03:45.776][initialize] This is biodb version 1.6.1.
biodb.DEBUG[2023-04-10 19:03:45.779][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 19:03:45.779][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.781][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.841][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.DEBUG[2023-04-10 19:03:45.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.861][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[2023-04-10 19:03:45.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:45.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:03:45.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:45.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:45.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:45.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:45.872][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[2023-04-10 19:03:45.873][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-04-10 19:03:45.881][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-04-10 19:03:45.888][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.889][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.890][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.891][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:03:45.891][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.892][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.893][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.894][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-04-10 19:03:45.895][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-04-10 19:03:45.895][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:03:45.896][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.897][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-04-10 19:03:45.898][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:03:45.899][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-04-10 19:03:45.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-04-10 19:03:45.899][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-04-10 19:03:45.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-04-10 19:03:45.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-04-10 19:03:45.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-04-10 19:03:45.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-04-10 19:03:45.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-04-10 19:03:45.899][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-04-10 19:03:45.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-04-10 19:03:45.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-04-10 19:03:45.900][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-04-10 19:03:45.901][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 19:03:45.901][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 19:03:45.901][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 19:03:45.901][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-04-10 19:03:45.902][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:03:45.903][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:03:45.904][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:03:45.904][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:03:45.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:03:45.906][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:03:45.907][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-04-10 19:03:45.907][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-04-10 19:03:45.907][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:03:45.908][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:03:45.909][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-04-10 19:03:45.910][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-04-10 19:03:45.910][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-04-10 19:03:45.915][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-04-10 19:03:45.916][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-04-10 19:03:45.917][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-04-10 19:03:45.919][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-04-10 19:03:45.920][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-04-10 19:03:45.921][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-04-10 19:03:45.945][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-04-10 19:03:45.947][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-04-10 19:03:45.950][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-04-10 19:03:45.954][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-04-10 19:03:45.958][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-04-10 19:03:45.959][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-04-10 19:03:45.961][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-04-10 19:03:45.962][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-04-10 19:03:45.969][biodb::testThat]
biodb.INFO [2023-04-10 19:03:45.971][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2023-04-10 19:03:45.972][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:45.973][biodb::testThat]
biodb.TRACE[2023-04-10 19:03:45.977][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2023-04-10 19:03:45.979][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:45.982][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:45.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:45.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:45.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:46.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:46.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:46.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:46.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:46.020][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.021][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.023][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.024][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.042][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:46.043][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:46.044][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.045][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.071][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:46.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:46.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.076][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:46.077][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:46.078][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.080][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.081][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:46.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:46.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.085][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:46.086][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:46.087][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.088][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.090][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:46.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:46.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.093][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.095][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.096][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.096][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.098][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.101][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.102][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.103][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.105][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.106][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.110][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:46.111][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.113][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.114][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.115][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:46.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.120][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.120][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.121][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.122][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.128][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:46.129][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:46.130][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.131][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:46.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:46.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.137][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:46.138][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.139][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.170][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.172][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:46.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.178][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:46.179][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:46.180][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.182][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.183][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:46.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:46.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:46.251][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2023-04-10 19:03:46.254][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:46.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:46.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.259][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:46.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:46.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.286][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.300][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 19:03:46.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 19:03:46.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.303][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 19:03:46.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 19:03:46.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.307][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-04-10 19:03:46.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-04-10 19:03:46.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.310][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-04-10 19:03:46.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-04-10 19:03:46.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.428][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.429][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.431][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.432][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.458][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.459][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.460][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.461][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:46.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.474][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:46.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:46.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.480][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:46.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:46.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.485][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:46.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:46.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.491][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:46.492][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:46.493][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.494][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.495][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:46.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:46.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.507][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:46.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:46.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.512][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:46.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:46.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.516][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:46.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:46.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.520][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:46.520][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:46.521][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.522][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.523][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:46.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:46.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.547][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.548][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.549][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.550][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.571][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.572][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.573][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.574][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.585][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:46.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:46.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.595][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:46.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:46.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.599][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:46.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:46.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.602][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:46.603][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:46.604][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.605][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.606][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:46.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:46.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.617][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.623][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.627][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.631][ef$get] Asked field names are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.632][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.633][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.634][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.635][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.647][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.652][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.656][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.660][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.661][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.662][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.663][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.664][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.673][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:46.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:46.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.677][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:46.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:46.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.681][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:46.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:46.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.685][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:46.686][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:46.688][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.689][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.690][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:46.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:46.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.703][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.713][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.717][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.718][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.720][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.721][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.722][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:46.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:46.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.741][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:46.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:46.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.747][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:46.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:46.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.750][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:46.752][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:46.753][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.754][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:46.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:46.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.766][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.768][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.769][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.769][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.774][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:46.775][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:46.776][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.777][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.781][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:46.782][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:46.783][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.784][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.789][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:46.790][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:46.792][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.793][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.799][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.800][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.801][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.802][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.808][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.809][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.810][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.811][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.826][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.827][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:46.829][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.830][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.836][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.837][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:46.838][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.840][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.846][ef$get] Asked field names are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.847][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:46.848][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.849][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.853][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:46.854][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:46.855][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.856][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.861][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:46.863][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:46.864][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.865][ef$get] fields variable is a list.
biodb.INFO [2023-04-10 19:03:46.871][biodb::testThat]
biodb.INFO [2023-04-10 19:03:46.872][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-04-10 19:03:46.873][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:46.874][biodb::testThat]
biodb.DEBUG[2023-04-10 19:03:46.886][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2023-04-10 19:03:46.895][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:46.899][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2023-04-10 19:03:46.901][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:46.902][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2023-04-10 19:03:46.904][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:46.923][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:46.925][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:46.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:46.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:46.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:46.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:46.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:46.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:46.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:46.938][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.939][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.940][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.941][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:46.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:46.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.966][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:46.967][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:46.968][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.969][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.970][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:46.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:46.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.974][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:46.975][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:46.976][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.977][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.978][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:46.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:46.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.981][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:46.982][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:46.983][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.984][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:46.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:46.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.989][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.990][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.991][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.992][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.993][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:46.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:46.997][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.998][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:46.998][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:46.999][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.000][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:47.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:47.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.004][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:47.005][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:47.006][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.007][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.008][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:47.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:47.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.012][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:47.013][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:47.014][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.021][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:47.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:47.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.025][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:47.026][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:47.027][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.028][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.029][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:47.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:47.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.033][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:47.033][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:47.034][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.035][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.036][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:47.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:47.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.039][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:47.040][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:47.041][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.042][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.043][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:47.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:47.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:47.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:47.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:47.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:47.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:47.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:47.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:47.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:47.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:47.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:47.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:47.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:47.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:47.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:47.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:47.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:47.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:47.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:47.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:47.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:47.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:47.081][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2023-04-10 19:03:47.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-04-10 19:03:47.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-04-10 19:03:47.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-04-10 19:03:47.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-04-10 19:03:47.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-04-10 19:03:47.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-04-10 19:03:47.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-04-10 19:03:47.096][biodb::testThat]
biodb.INFO [2023-04-10 19:03:47.097][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2023-04-10 19:03:47.098][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:47.099][biodb::testThat]
biodb.TRACE[2023-04-10 19:03:47.101][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:47.102][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:47.103][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.104][ef$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:47.105][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2023-04-10 19:03:47.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:47.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:47.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:47.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:47.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.134][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:47.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:47.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:47.139][function(conn, opt)] With value "squalene".
biodb.DEBUG[2023-04-10 19:03:47.143][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-04-10 19:03:47.159][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:47.172][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-04-10 19:03:47.173][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:47.175][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-04-10 19:03:47.199][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[2023-04-10 19:03:47.204][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:47.206][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-04-10 19:03:47.207][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:47.209][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-04-10 19:03:47.211][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2023-04-10 19:03:47.224][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:47.225][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:47.226][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.227][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.228][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:47.229][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:47.229][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.230][ef$get] fields variable is a list.
biodb.INFO [2023-04-10 19:03:47.232][biodb::testThat]
biodb.INFO [2023-04-10 19:03:47.233][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2023-04-10 19:03:47.234][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:47.235][biodb::testThat]
biodb.TRACE[2023-04-10 19:03:47.257][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:47.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:47.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.261][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:47.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:47.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.265][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:47.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:47.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:47.319][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[2023-04-10 19:03:47.323][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:47.325][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-04-10 19:03:47.326][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:47.327][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2023-04-10 19:03:47.346][biodb::testThat]
biodb.INFO [2023-04-10 19:03:47.347][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2023-04-10 19:03:47.348][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:47.349][biodb::testThat]
biodb.TRACE[2023-04-10 19:03:47.374][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:47.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:47.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.379][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:47.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:47.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.382][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:47.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:47.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.386][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:47.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:47.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:47.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:47.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:47.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:47.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.398][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 19:03:47.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 19:03:47.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.402][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 19:03:47.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 19:03:47.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.406][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-04-10 19:03:47.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-04-10 19:03:47.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.410][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-04-10 19:03:47.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-04-10 19:03:47.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:47.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:47.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:47.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:47.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:47.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:47.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:47.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:47.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:47.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:47.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:47.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:47.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.454][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 19:03:47.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 19:03:47.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.458][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 19:03:47.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 19:03:47.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.463][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-04-10 19:03:47.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-04-10 19:03:47.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:47.468][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-04-10 19:03:47.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-04-10 19:03:47.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:47.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-04-10 19:03:47.474][biodb::testThat]
biodb.INFO [2023-04-10 19:03:47.475][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-04-10 19:03:47.476][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:47.477][biodb::testThat]
biodb.INFO [2023-04-10 19:03:47.482][biodb::testThat]
biodb.INFO [2023-04-10 19:03:47.482][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-04-10 19:03:47.483][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:47.484][biodb::testThat]
biodb.INFO [2023-04-10 19:03:47.489][biodb::testThat]
biodb.INFO [2023-04-10 19:03:47.490][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2023-04-10 19:03:47.491][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:47.492][biodb::testThat]
biodb.DEBUG[2023-04-10 19:03:47.495][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2023-04-10 19:03:48.200][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2023-04-10 19:03:49.673][biodb::testThat]
biodb.INFO [2023-04-10 19:03:49.675][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2023-04-10 19:03:49.676][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:49.677][biodb::testThat]
biodb.DEBUG[2023-04-10 19:03:50.165][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[2023-04-10 19:03:50.616][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:50.617][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:50.619][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.620][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.621][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:50.623][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:50.624][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.625][ef$get] fields variable is a list.
biodb.INFO [2023-04-10 19:03:50.627][biodb::testThat]
biodb.INFO [2023-04-10 19:03:50.628][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2023-04-10 19:03:50.629][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:50.630][biodb::testThat]
biodb.TRACE[2023-04-10 19:03:50.643][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:50.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:50.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.647][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:50.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:50.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.651][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:50.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:50.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:50.740][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[2023-04-10 19:03:50.745][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:50.746][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-04-10 19:03:50.748][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:50.749][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-04-10 19:03:50.806][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[2023-04-10 19:03:50.809][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:50.810][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-04-10 19:03:50.811][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:50.812][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2023-04-10 19:03:50.826][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-04-10 19:03:50.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-04-10 19:03:50.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:50.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:50.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:50.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:50.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:50.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:50.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:50.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:50.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:50.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:50.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:50.864][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[2023-04-10 19:03:50.869][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:50.871][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-04-10 19:03:50.873][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:50.875][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-04-10 19:03:50.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:50.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:50.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:50.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:50.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:50.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:50.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:50.898][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2023-04-10 19:03:50.946][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:50.947][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2023-04-10 19:03:50.950][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:50.952][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2023-04-10 19:03:50.953][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:50.954][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:50.956][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:50.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:50.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:50.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:50.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:50.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:50.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:50.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:50.970][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:50.971][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:50.972][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.973][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:50.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:50.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.979][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:50.980][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:50.981][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.981][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.983][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:50.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:50.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.987][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:50.988][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:50.990][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.991][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.993][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:50.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:50.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:50.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:50.997][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:50.998][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:50.999][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.000][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:51.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:51.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.005][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.006][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.008][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.009][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.014][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.015][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.015][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.016][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.017][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:51.018][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.019][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.020][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.021][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:51.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.025][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.026][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.027][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.028][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.035][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:51.037][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:51.038][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.039][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.041][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:51.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:51.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.045][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:51.046][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:51.047][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.047][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.056][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:51.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:51.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.060][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:51.061][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:51.062][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.063][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.064][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:51.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:51.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:51.105][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2023-04-10 19:03:51.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:51.124][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[2023-04-10 19:03:51.127][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:51.129][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-04-10 19:03:51.131][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:51.132][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-04-10 19:03:51.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:51.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:51.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:51.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:51.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:51.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:51.162][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.TRACE[2023-04-10 19:03:51.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:51.178][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[2023-04-10 19:03:51.181][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:51.183][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-04-10 19:03:51.184][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:51.186][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-04-10 19:03:51.213][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[2023-04-10 19:03:51.216][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:51.224][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-04-10 19:03:51.225][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:51.227][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-04-10 19:03:51.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:51.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:51.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:51.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:51.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:51.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:51.237][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.TRACE[2023-04-10 19:03:51.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.242][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:51.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:51.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:51.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:51.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:51.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:51.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:51.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:51.261][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2023-04-10 19:03:51.262][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:51.264][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2023-04-10 19:03:51.266][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:51.268][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2023-04-10 19:03:51.269][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:51.271][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:51.273][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:51.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:51.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:51.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:51.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:51.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:51.286][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:51.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:51.289][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.290][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.291][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.292][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.296][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:51.297][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:51.298][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.299][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.300][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:51.301][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:51.301][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.302][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.303][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:51.304][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:51.305][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.306][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.307][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.308][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.309][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.309][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.310][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.311][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.312][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.313][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.314][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:51.315][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.316][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.316][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.317][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.318][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.319][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.320][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.321][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:51.322][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:51.323][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.323][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.325][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:51.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:51.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.328][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:51.329][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:51.330][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.330][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.331][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:51.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:51.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.335][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:51.336][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:51.336][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.337][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:51.373][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2023-04-10 19:03:51.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:51.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:51.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:51.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:51.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:51.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:51.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:51.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:51.404][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2023-04-10 19:03:51.405][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:51.407][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2023-04-10 19:03:51.408][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:51.409][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2023-04-10 19:03:51.411][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:51.412][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:51.414][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:51.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:51.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:51.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:51.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:51.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:51.423][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:51.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:51.428][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.429][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.430][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.432][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.438][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:51.439][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:51.440][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.441][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.442][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:51.444][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:51.445][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.446][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.448][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:51.449][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:51.451][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.452][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.453][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.454][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.456][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.457][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.458][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.460][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.461][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.462][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.464][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:51.465][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.465][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.466][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.468][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.469][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.470][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.471][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.473][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:51.473][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:51.474][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.475][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.477][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:51.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:51.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.481][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:51.482][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:51.483][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.485][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.486][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:51.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:51.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.490][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:51.492][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:51.493][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.494][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:51.535][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2023-04-10 19:03:51.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:51.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:51.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:51.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:51.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:51.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:51.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:51.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:51.574][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2023-04-10 19:03:51.575][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:51.577][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2023-04-10 19:03:51.578][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:51.580][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2023-04-10 19:03:51.581][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:51.582][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:51.583][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:51.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:51.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:51.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:51.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:51.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:51.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:51.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:51.598][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.599][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.600][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.601][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.605][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:51.606][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:51.607][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.608][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.609][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:51.610][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:51.610][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.611][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.612][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:51.613][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:51.614][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.615][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.617][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.618][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.620][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.621][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.623][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.624][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.625][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.626][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.627][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:51.628][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.629][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.630][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.631][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.633][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.634][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.635][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.636][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:51.637][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:51.638][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.639][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.640][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:51.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:51.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.644][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:51.645][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:51.646][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.647][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.648][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:51.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:51.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.651][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:51.652][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:51.653][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.654][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:51.688][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2023-04-10 19:03:51.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:51.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:51.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:51.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:51.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:51.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:51.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:51.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:51.725][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2023-04-10 19:03:51.726][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:51.727][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2023-04-10 19:03:51.728][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:51.730][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2023-04-10 19:03:51.731][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:51.732][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:51.733][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:51.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:51.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:51.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:51.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:51.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:51.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:51.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:51.747][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.749][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.750][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.751][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.756][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:51.757][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:51.758][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.759][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.760][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:51.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:51.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.763][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:51.764][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:51.765][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.766][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.767][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:51.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:51.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.771][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:51.771][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:51.772][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.773][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:51.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:51.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.778][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.778][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.779][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.780][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.781][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.784][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.785][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.786][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.787][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.788][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.791][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:51.792][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.793][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.794][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.795][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:51.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.798][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.799][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.800][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.801][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.805][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:51.806][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:51.807][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.808][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.809][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:51.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:51.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.812][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:51.813][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:51.814][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.815][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.816][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:51.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:51.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.820][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:51.822][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:51.823][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.824][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.825][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:51.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:51.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:51.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:51.877][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2023-04-10 19:03:51.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:51.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:51.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:51.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:51.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:51.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:51.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:51.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:51.908][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2023-04-10 19:03:51.910][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:51.911][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2023-04-10 19:03:51.917][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:51.919][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2023-04-10 19:03:51.920][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:51.921][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:51.923][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:51.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:51.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:51.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:51.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:51.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:51.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:51.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:51.937][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.938][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.939][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.940][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:51.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:51.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.944][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:51.945][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:51.946][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.947][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.948][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:51.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:51.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.952][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:51.953][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:51.953][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.954][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.956][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:51.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:51.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.959][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:51.960][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:51.961][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.962][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:51.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:51.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.967][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.968][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.968][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.969][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:51.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.974][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.975][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.976][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.977][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.978][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:51.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.981][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:51.982][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.983][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.984][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.985][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:51.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:51.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.989][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.990][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.991][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.992][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:51.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:51.996][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:51.997][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:51.998][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:51.999][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.000][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:52.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:52.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.004][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:52.005][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:52.006][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.006][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.007][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:52.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:52.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.011][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:52.012][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:52.013][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.014][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.015][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:52.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:52.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:52.063][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2023-04-10 19:03:52.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:52.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:52.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:52.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:52.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:52.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:52.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:52.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:52.086][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2023-04-10 19:03:52.087][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:52.088][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2023-04-10 19:03:52.089][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:52.091][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2023-04-10 19:03:52.092][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:52.094][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:52.095][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:52.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:52.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:52.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:52.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:52.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:52.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:52.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:52.113][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.115][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.116][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.117][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.123][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:52.124][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:52.126][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.127][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.128][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:52.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:52.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.133][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:52.134][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:52.135][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.136][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.137][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:52.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:52.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.140][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:52.141][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:52.142][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.143][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.144][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:52.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:52.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.147][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.148][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.149][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.150][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.151][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.154][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:52.155][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:52.156][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.157][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.158][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:52.159][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.160][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.162][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.163][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:52.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.166][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.167][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.168][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.169][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.175][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:52.176][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:52.177][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.178][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.179][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:52.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:52.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.185][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:52.186][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:52.187][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.188][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.190][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:52.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:52.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.194][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:52.195][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:52.196][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.198][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.199][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:52.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:52.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:52.252][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2023-04-10 19:03:52.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:52.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:52.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:52.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:52.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:52.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:52.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:52.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:52.279][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2023-04-10 19:03:52.280][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:52.282][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2023-04-10 19:03:52.283][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:52.285][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2023-04-10 19:03:52.286][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:52.287][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:52.288][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:52.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:52.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:52.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:52.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:52.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:52.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:52.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:52.306][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.307][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.308][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.310][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.315][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:52.316][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:52.317][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.318][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.319][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:52.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:52.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.324][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:52.325][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:52.326][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.326][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.328][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:52.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:52.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.332][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:52.333][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:52.334][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.335][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:52.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:52.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.340][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.341][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.342][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.343][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.347][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:52.348][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:52.349][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.350][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.351][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:52.352][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.353][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.354][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.355][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:52.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.358][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.359][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.360][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.361][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.366][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:52.367][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:52.368][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.369][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:52.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:52.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.373][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:52.374][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:52.375][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.376][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.377][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:52.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:52.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.381][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:52.382][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:52.388][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.389][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.390][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:52.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:52.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:52.430][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2023-04-10 19:03:52.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:52.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:52.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:52.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:52.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:52.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:52.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:52.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:52.454][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2023-04-10 19:03:52.455][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:52.457][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2023-04-10 19:03:52.462][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:52.464][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2023-04-10 19:03:52.465][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:52.466][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:52.467][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:52.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:52.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:52.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:52.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:52.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:52.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:52.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:52.479][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.480][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.481][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.482][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.486][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:52.487][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:52.488][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.488][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.489][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:52.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:52.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.493][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:52.494][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:52.494][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.495][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.496][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:52.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:52.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.500][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:52.500][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:52.501][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.502][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.503][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:52.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:52.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.508][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.509][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.510][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.511][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.513][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.518][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:52.519][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:52.520][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.522][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.523][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:52.525][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.526][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.527][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.529][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:52.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.533][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.534][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.534][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.535][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.540][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:52.541][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:52.542][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.543][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.544][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:52.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:52.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.555][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:52.556][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:52.557][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.558][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.559][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:52.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:52.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.562][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:52.563][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:52.564][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.565][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.566][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:52.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:52.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:52.610][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2023-04-10 19:03:52.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:52.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:52.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:52.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:52.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:52.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:52.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:52.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:52.635][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2023-04-10 19:03:52.636][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:52.637][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2023-04-10 19:03:52.638][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:52.644][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2023-04-10 19:03:52.645][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:52.646][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:52.647][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:52.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:52.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:52.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:52.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:52.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:52.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:52.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:52.662][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.664][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.665][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.666][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.672][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:52.673][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:52.674][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.675][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.677][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:52.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:52.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.682][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:52.683][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:52.684][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.686][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.687][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:52.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:52.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.691][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:52.693][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:52.694][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.695][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:52.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:52.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.700][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.701][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.702][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.703][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.708][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:52.709][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:52.710][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.711][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.712][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:52.713][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.714][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.715][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.716][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:52.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.722][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.723][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.731][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.732][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.738][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:52.738][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:52.739][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.740][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:52.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:52.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.745][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:52.746][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:52.747][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.748][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.749][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:52.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:52.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.753][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:52.754][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:52.755][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.756][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.757][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:52.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:52.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:52.801][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2023-04-10 19:03:52.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:52.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:52.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:52.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:52.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:52.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:52.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:52.822][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[2023-04-10 19:03:52.824][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2023-04-10 19:03:52.825][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:52.826][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2023-04-10 19:03:52.829][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:52.831][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2023-04-10 19:03:52.832][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:52.833][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:52.835][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:52.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:52.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:52.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:52.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:52.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:52.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:52.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:52.852][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.853][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.853][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.854][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.860][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:52.861][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:52.863][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.864][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.866][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:52.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:52.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.869][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:52.870][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:52.871][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.872][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.873][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:52.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:52.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.877][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:52.878][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:52.879][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.880][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:52.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:52.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.884][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.885][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.886][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.887][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:52.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.893][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:52.930][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:52.931][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.932][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.933][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:52.935][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.936][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.937][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.938][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:52.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:52.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.942][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.943][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.944][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.945][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:52.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.951][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:52.952][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:52.953][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.954][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.955][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:52.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:52.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.959][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:52.961][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:52.962][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.963][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.964][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:52.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:52.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.968][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:52.969][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:52.970][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.970][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.972][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:52.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:52.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:52.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:52.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:52.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:52.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:52.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:53.016][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2023-04-10 19:03:53.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:53.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:53.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:53.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:53.035][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:53.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:53.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:53.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:53.038][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2023-04-10 19:03:53.040][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:53.041][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2023-04-10 19:03:53.042][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:53.044][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2023-04-10 19:03:53.045][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:53.046][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:53.048][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:53.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:53.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:53.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:53.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:53.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:53.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:53.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:53.060][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.061][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.061][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.062][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.068][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:53.069][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:53.069][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.070][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.071][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:53.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:53.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.075][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:53.076][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:53.077][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.078][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.079][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:53.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:53.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.083][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:53.084][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:53.085][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.085][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.087][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.088][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.088][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.096][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.098][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:53.099][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:53.101][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.102][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.104][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:53.105][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.106][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.106][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.108][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:53.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.111][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.112][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.113][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.113][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.118][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:53.119][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:53.119][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.120][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.121][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:53.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:53.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.125][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:53.126][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:53.127][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.127][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.129][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:53.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:53.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.132][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:53.133][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:53.134][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.134][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:53.175][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2023-04-10 19:03:53.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:53.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:53.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:53.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:53.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:53.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:53.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:53.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:53.202][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2023-04-10 19:03:53.203][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:53.205][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2023-04-10 19:03:53.206][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:53.208][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2023-04-10 19:03:53.210][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:53.211][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:53.212][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:53.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:53.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:53.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:53.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:53.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:53.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:53.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:53.227][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.229][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.229][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.231][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.236][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:53.237][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:53.238][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.239][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.241][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:53.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:53.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.245][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:53.246][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:53.247][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.248][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.250][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:53.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:53.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.255][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:53.256][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:53.256][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.257][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.258][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.259][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.260][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.261][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.269][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:53.271][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:53.272][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.273][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.275][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:53.276][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.277][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.278][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.279][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:53.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.284][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.286][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.287][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.288][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.292][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:53.294][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:53.295][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.296][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.298][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:53.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:53.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.302][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:53.303][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:53.304][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.305][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.306][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:53.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:53.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.310][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:53.311][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:53.313][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.314][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:53.358][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2023-04-10 19:03:53.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:53.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:53.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:53.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:53.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:53.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:53.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:53.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:53.387][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2023-04-10 19:03:53.387][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:53.389][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2023-04-10 19:03:53.392][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:53.394][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2023-04-10 19:03:53.395][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:53.396][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:53.397][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:53.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:53.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:53.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:53.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:53.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:53.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:53.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:53.412][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.414][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.415][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.421][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:53.423][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:53.424][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.425][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.426][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:53.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:53.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.431][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:53.432][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:53.432][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.433][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.434][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:53.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:53.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.438][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:53.439][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:53.439][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.440][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:53.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:53.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.445][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.452][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.453][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.454][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.460][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:53.461][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:53.462][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.463][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.464][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:53.466][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.466][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.467][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.468][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:53.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.472][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.473][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.474][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.475][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.480][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:53.481][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:53.482][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.482][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:53.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:53.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.487][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:53.488][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:53.489][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.490][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.491][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:53.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:53.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.496][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:53.497][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:53.498][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.499][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.500][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:53.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:53.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:53.550][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2023-04-10 19:03:53.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:53.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:53.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:53.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:53.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:53.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:53.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:53.570][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[2023-04-10 19:03:53.571][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2023-04-10 19:03:53.572][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:53.574][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2023-04-10 19:03:53.575][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:53.577][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2023-04-10 19:03:53.578][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:53.580][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:53.581][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:53.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:53.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:53.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:53.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:53.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:53.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:53.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:53.596][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.597][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.598][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.599][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.603][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:53.604][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:53.605][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.606][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.608][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:53.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:53.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.612][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:53.612][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:53.613][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.614][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.616][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:53.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:53.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.627][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:53.628][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:53.628][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.629][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:53.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:53.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.635][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.636][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.637][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.638][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.645][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:53.646][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:53.647][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.648][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.649][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:53.651][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.652][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.653][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.654][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:53.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.659][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.660][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.661][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.663][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.669][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:53.670][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:53.671][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.672][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:53.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:53.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.677][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:53.678][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:53.679][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.680][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.681][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:53.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:53.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.685][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:53.686][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:53.686][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.687][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.688][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:53.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:53.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:53.740][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2023-04-10 19:03:53.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:53.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:53.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:53.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:53.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:53.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:53.764][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:53.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:53.766][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2023-04-10 19:03:53.766][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:53.768][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2023-04-10 19:03:53.770][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:53.772][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2023-04-10 19:03:53.774][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:53.775][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:53.777][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:53.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:53.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:53.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:53.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:53.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:53.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:53.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:53.791][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.792][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.793][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.794][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.799][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:53.800][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:53.802][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.810][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.812][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:53.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:53.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.816][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:53.817][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:53.818][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.818][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.820][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:53.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:53.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.823][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:53.824][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:53.825][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.826][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:53.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:53.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.831][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.832][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.832][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.833][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:53.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.838][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:53.839][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:53.840][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.841][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.842][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:53.843][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.845][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.846][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.847][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:53.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.852][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.854][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.855][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.856][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:53.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.861][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:53.862][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:53.863][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.864][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.865][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:53.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:53.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.869][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:53.870][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:53.871][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.872][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:53.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:53.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.879][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:53.880][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:53.882][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.883][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.885][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:53.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:53.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:53.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:53.930][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2023-04-10 19:03:53.931][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:53.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:53.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:53.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:53.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:53.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:53.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:53.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:53.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:53.958][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2023-04-10 19:03:53.959][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:53.961][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2023-04-10 19:03:53.962][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:53.964][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2023-04-10 19:03:53.965][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:53.966][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:53.968][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:53.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:53.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:53.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:53.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:53.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:53.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:53.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:53.992][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.993][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:53.994][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:53.995][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:53.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:53.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.002][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:54.004][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:54.005][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.006][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.007][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:54.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:54.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.011][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:54.012][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:54.013][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.014][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.015][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:54.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:54.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.020][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:54.021][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:54.022][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.023][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.024][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:54.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:54.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.029][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:54.030][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:54.031][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.032][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:54.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:54.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.038][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:54.039][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:54.040][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.041][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.042][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:54.043][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.044][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.045][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.047][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:54.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.052][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.053][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.054][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.056][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.060][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:54.061][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:54.062][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.063][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.064][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:54.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:54.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.068][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:54.068][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:54.069][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.070][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.071][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:54.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:54.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.075][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:54.076][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:54.077][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.078][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.080][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:54.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:54.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:54.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:54.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:54.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:54.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:54.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:54.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.128][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2023-04-10 19:03:54.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.145][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:54.157][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2023-04-10 19:03:54.158][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:54.159][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2023-04-10 19:03:54.161][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:54.163][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2023-04-10 19:03:54.164][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:54.166][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:54.166][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:54.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.190][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.191][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.192][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.193][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.200][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:54.201][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:54.202][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.202][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.204][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:54.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:54.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.208][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:54.209][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:54.211][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.212][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.213][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:54.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:54.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.217][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:54.219][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:54.220][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.221][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:54.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:54.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.226][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:54.227][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:54.228][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.230][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.231][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:54.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:54.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.236][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:54.236][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:54.237][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.238][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.240][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:54.241][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.242][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.243][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.244][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:54.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.248][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.249][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.251][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.252][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.258][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:54.259][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:54.260][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.261][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.262][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:54.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:54.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.267][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:54.268][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:54.269][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.270][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.271][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:54.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:54.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.274][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:54.275][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:54.276][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.277][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.278][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:54.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:54.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:54.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:54.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:54.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:54.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:54.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:54.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.324][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2023-04-10 19:03:54.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.364][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[2023-04-10 19:03:54.367][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:54.368][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-04-10 19:03:54.369][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:54.370][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-04-10 19:03:54.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.494][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.570][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[2023-04-10 19:03:54.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.604][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.633][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.751][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.TRACE[2023-04-10 19:03:54.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:54.858][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[2023-04-10 19:03:54.861][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:54.863][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2023-04-10 19:03:54.864][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:54.866][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2023-04-10 19:03:54.869][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[2023-04-10 19:03:54.872][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:54.873][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2023-04-10 19:03:54.874][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:54.876][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2023-04-10 19:03:54.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.890][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:54.893][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2023-04-10 19:03:54.894][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:54.896][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2023-04-10 19:03:54.898][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:54.900][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2023-04-10 19:03:54.901][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:54.903][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:54.904][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:54.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:54.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:54.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:54.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:54.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:54.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:54.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:54.918][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.920][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.921][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.922][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:54.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:54.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.929][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:54.930][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:54.931][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.932][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.933][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:54.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:54.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.937][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:54.938][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:54.939][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.940][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.941][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:54.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:54.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.945][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:54.946][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:54.947][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.948][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:54.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:54.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.952][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:54.953][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:54.954][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.955][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:54.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:54.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.960][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:54.961][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:54.961][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.962][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.963][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:54.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:54.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.967][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:54.968][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.969][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.970][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.977][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:54.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:54.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.982][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.982][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.983][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.984][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:54.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.989][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:54.990][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:54.991][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.991][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.993][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:54.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:54.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:54.997][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:54.997][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:54.998][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:54.999][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.000][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:55.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:55.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.004][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:55.005][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:55.006][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.007][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.008][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:55.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:55.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:55.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:55.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:55.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:55.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:55.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:55.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.058][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2023-04-10 19:03:55.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:55.105][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2023-04-10 19:03:55.106][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:55.108][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2023-04-10 19:03:55.109][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:55.111][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2023-04-10 19:03:55.112][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:55.114][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:55.115][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:55.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.133][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.135][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.136][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.137][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.142][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:55.143][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:55.144][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.145][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.153][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:55.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:55.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.158][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:55.159][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:55.160][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.161][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.162][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:55.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:55.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.166][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:55.167][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:55.168][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.169][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.170][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:55.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:55.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.174][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:55.175][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:55.176][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.177][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:55.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:55.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.182][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:55.183][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:55.184][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.184][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.186][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:55.187][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:55.187][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.188][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.189][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:55.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:55.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.194][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.196][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.197][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.198][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.203][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:55.204][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:55.205][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.206][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:55.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:55.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.212][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:55.213][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:55.214][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.216][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.217][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:55.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:55.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.223][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:55.224][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:55.225][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.227][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.228][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:55.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:55.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:55.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:55.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:55.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:55.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:55.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:55.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:55.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:55.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.273][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2023-04-10 19:03:55.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.305][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[2023-04-10 19:03:55.308][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:55.310][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-04-10 19:03:55.311][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:55.312][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-04-10 19:03:55.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.439][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[2023-04-10 19:03:55.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.465][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.502][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.508][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.510][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.TRACE[2023-04-10 19:03:55.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.537][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[2023-04-10 19:03:55.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.612][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.TRACE[2023-04-10 19:03:55.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.657][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.669][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.781][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[2023-04-10 19:03:55.784][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:55.785][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2023-04-10 19:03:55.787][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:55.788][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2023-04-10 19:03:55.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.839][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.964][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.TRACE[2023-04-10 19:03:55.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:55.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:55.977][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:55.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:55.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:55.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:55.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:55.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:55.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:55.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:55.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:55.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.011][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[2023-04-10 19:03:56.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.036][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[2023-04-10 19:03:56.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.145][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.226][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[2023-04-10 19:03:56.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.255][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-04-10 19:03:56.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-04-10 19:03:56.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-04-10 19:03:56.267][biodb::testThat]
biodb.INFO [2023-04-10 19:03:56.268][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2023-04-10 19:03:56.269][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:56.270][biodb::testThat]
biodb.TRACE[2023-04-10 19:03:56.275][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-04-10 19:03:56.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-04-10 19:03:56.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:56.322][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[2023-04-10 19:03:56.326][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:56.327][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-04-10 19:03:56.328][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:56.329][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-04-10 19:03:56.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.341][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.TRACE[2023-04-10 19:03:56.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.357][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[2023-04-10 19:03:56.360][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:56.361][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-04-10 19:03:56.362][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:56.363][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-04-10 19:03:56.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.373][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[2023-04-10 19:03:56.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:56.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.385][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[2023-04-10 19:03:56.387][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:56.388][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-04-10 19:03:56.390][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:56.391][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-04-10 19:03:56.393][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-04-10 19:03:56.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.412][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.413][private$selectFields]
biodb.TRACE[2023-04-10 19:03:56.414][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:56.415][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:56.416][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.416][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.417][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.418][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.419][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.420][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.421][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.422][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.423][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.425][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.426][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.427][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.429][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.430][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.431][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.433][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:56.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.470][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-04-10 19:03:56.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.473][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.495][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.496][private$selectFields]
biodb.TRACE[2023-04-10 19:03:56.497][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:56.498][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:56.499][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.500][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.501][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.502][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.503][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.504][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.505][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.506][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.507][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.508][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.510][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.511][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.512][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.513][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.514][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.515][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:56.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.530][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-04-10 19:03:56.531][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-04-10 19:03:56.532][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-04-10 19:03:56.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:56.619][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-04-10 19:03:56.622][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:56.624][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-04-10 19:03:56.625][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:56.631][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-04-10 19:03:56.634][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-04-10 19:03:56.637][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:56.639][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-04-10 19:03:56.641][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:56.642][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-04-10 19:03:56.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:56.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:56.752][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-04-10 19:03:56.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.807][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.808][private$selectFields]
biodb.TRACE[2023-04-10 19:03:56.809][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:56.810][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:56.811][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.811][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.812][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.813][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.814][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.815][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.816][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.817][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.818][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.818][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.819][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.820][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.821][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.822][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.823][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.824][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:56.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.836][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-04-10 19:03:56.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.884][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.885][private$selectFields]
biodb.TRACE[2023-04-10 19:03:56.886][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:56.887][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:56.888][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.889][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.890][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.891][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.892][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.892][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.893][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.894][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.895][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.896][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.905][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.907][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.908][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.909][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.910][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.911][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:56.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.934][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-04-10 19:03:56.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:56.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:56.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:56.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:56.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:56.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:56.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:56.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.957][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.958][private$selectFields]
biodb.TRACE[2023-04-10 19:03:56.959][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:56.959][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:56.960][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.961][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.963][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.963][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.964][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.965][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.966][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.967][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.968][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.969][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.970][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:56.971][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.972][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.973][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.974][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.975][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:56.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:56.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:56.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:56.988][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-04-10 19:03:56.989][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-04-10 19:03:56.990][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-04-10 19:03:56.998][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-04-10 19:03:57.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-04-10 19:03:57.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-04-10 19:03:57.006][biodb::testThat]
biodb.INFO [2023-04-10 19:03:57.007][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2023-04-10 19:03:57.008][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:57.009][biodb::testThat]
biodb.TRACE[2023-04-10 19:03:57.013][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-04-10 19:03:57.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-04-10 19:03:57.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:57.048][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-04-10 19:03:57.051][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:57.052][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-04-10 19:03:57.054][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:57.055][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-04-10 19:03:57.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.081][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-04-10 19:03:57.084][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:57.085][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-04-10 19:03:57.086][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:57.087][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-04-10 19:03:57.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.117][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.74*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-04-10 19:03:57.120][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:57.122][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-04-10 19:03:57.124][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:57.125][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-04-10 19:03:57.128][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-04-10 19:03:57.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.138][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.151][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.152][private$selectFields]
biodb.TRACE[2023-04-10 19:03:57.153][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:57.154][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:57.156][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.157][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.158][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.159][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.160][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.162][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.163][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.164][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.166][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.167][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.167][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.168][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.169][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.170][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.171][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.172][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:57.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.184][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-04-10 19:03:57.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.193][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[2023-04-10 19:03:57.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.201][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.202][private$selectFields]
biodb.TRACE[2023-04-10 19:03:57.203][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:57.204][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:57.205][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.206][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.207][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.207][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.208][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.209][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.210][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.211][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.212][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.213][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.214][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.214][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.215][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.216][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.217][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.218][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:57.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.231][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-04-10 19:03:57.232][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-04-10 19:03:57.233][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-04-10 19:03:57.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.266][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:57.277][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[2023-04-10 19:03:57.280][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:57.281][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-04-10 19:03:57.282][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:57.283][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-04-10 19:03:57.286][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[2023-04-10 19:03:57.289][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:57.291][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-04-10 19:03:57.292][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:57.293][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-04-10 19:03:57.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.368][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-04-10 19:03:57.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.392][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.392][private$selectFields]
biodb.TRACE[2023-04-10 19:03:57.393][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:57.395][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:57.396][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.397][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.398][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.399][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.399][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.401][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.402][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.403][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.403][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.404][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.405][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.406][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.407][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.408][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.409][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.410][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:57.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.423][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-04-10 19:03:57.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.450][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.450][private$selectFields]
biodb.TRACE[2023-04-10 19:03:57.451][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:57.452][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:57.453][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.454][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.455][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.456][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.458][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.459][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.460][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.461][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.462][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.463][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.464][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.465][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.466][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.467][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.468][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.470][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:57.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.483][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-04-10 19:03:57.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.507][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.508][private$selectFields]
biodb.TRACE[2023-04-10 19:03:57.509][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:57.511][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:57.512][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.513][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.515][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.515][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.516][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.518][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.519][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.520][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.522][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.523][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.524][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.525][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.526][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.527][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.528][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.529][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:57.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.544][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-04-10 19:03:57.545][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-04-10 19:03:57.545][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-04-10 19:03:57.555][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-04-10 19:03:57.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-04-10 19:03:57.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-04-10 19:03:57.562][biodb::testThat]
biodb.INFO [2023-04-10 19:03:57.563][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2023-04-10 19:03:57.565][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:57.566][biodb::testThat]
biodb.TRACE[2023-04-10 19:03:57.569][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-04-10 19:03:57.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-04-10 19:03:57.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:57.611][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[2023-04-10 19:03:57.625][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:57.627][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2023-04-10 19:03:57.629][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:57.631][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2023-04-10 19:03:57.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.647][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.654][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[2023-04-10 19:03:57.657][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:57.658][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2023-04-10 19:03:57.659][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:57.661][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2023-04-10 19:03:57.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.669][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:57.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.689][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[2023-04-10 19:03:57.692][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:57.694][cch$loadFileContent] Trying to load 1 files from cache: [1]: "94c7655c8f372fb2982c15119402bcba".
biodb.TRACE[2023-04-10 19:03:57.696][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:57.697][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/94c7655c8f372fb2982c15119402bcba.content".
biodb.DEBUG[2023-04-10 19:03:57.699][private$bdb$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-04-10 19:03:57.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.725][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.726][private$selectFields]
biodb.TRACE[2023-04-10 19:03:57.728][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:57.729][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:57.730][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.731][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.733][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.734][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.735][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.736][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.737][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.738][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.739][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.740][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.741][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.742][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.743][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.744][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.745][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.747][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:57.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.760][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2023-04-10 19:03:57.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.783][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.784][private$selectFields]
biodb.TRACE[2023-04-10 19:03:57.785][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:57.786][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:57.787][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.788][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.790][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.791][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.792][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.793][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.794][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.795][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.796][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.796][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.804][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.805][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.806][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.807][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.808][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.809][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:57.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.821][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-04-10 19:03:57.822][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-04-10 19:03:57.823][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-04-10 19:03:57.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:57.877][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-04-10 19:03:57.880][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:57.881][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2023-04-10 19:03:57.882][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:57.884][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2023-04-10 19:03:57.886][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2023-04-10 19:03:57.889][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:03:57.890][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2023-04-10 19:03:57.892][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:03:57.894][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2023-04-10 19:03:57.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:57.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:57.970][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-04-10 19:03:57.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:57.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:57.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:57.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:57.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:57.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:57.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:57.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:57.992][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.993][private$selectFields]
biodb.TRACE[2023-04-10 19:03:57.994][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:57.994][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:57.995][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:57.996][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.997][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:57.998][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:57.999][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.000][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.001][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.002][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.003][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.004][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:58.005][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:58.005][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.006][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.007][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.008][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.009][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:58.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.021][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2023-04-10 19:03:58.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:58.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:58.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:58.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:58.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:58.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:58.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:58.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.042][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:58.043][private$selectFields]
biodb.TRACE[2023-04-10 19:03:58.044][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:58.045][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:58.045][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:58.046][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.047][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.048][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.049][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.050][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.051][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.051][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.053][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.054][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:58.055][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:58.055][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.056][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.057][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.058][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.059][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:58.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.070][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2023-04-10 19:03:58.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:58.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:58.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:58.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:58.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:58.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:58.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:03:58.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.088][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:58.089][private$selectFields]
biodb.TRACE[2023-04-10 19:03:58.090][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 19:03:58.090][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 19:03:58.091][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:58.092][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.093][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.094][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.095][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.096][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.097][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.098][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.099][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.100][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:58.101][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2023-04-10 19:03:58.102][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.103][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.104][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.105][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.106][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2023-04-10 19:03:58.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:58.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:58.129][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2023-04-10 19:03:58.130][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-04-10 19:03:58.130][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-04-10 19:03:58.149][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-04-10 19:03:58.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-04-10 19:03:58.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:58.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-04-10 19:03:58.154][biodb::testThat]
biodb.INFO [2023-04-10 19:03:58.155][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2023-04-10 19:03:58.156][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:58.157][biodb::testThat]
biodb.DEBUG[2023-04-10 19:03:58.158][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-04-10 19:03:58.159][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:03:58.161][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-04-10 19:03:58.162][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-04-10 19:03:58.163][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-04-10 19:03:58.164][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:58.165][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-04-10 19:03:58.166][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2023-04-10 19:03:58.167][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2023-04-10 19:03:58.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:58.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:58.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:58.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:58.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:58.177][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:58.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:58.179][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2023-04-10 19:03:58.181][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-04-10 19:03:58.182][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-04-10 19:03:58.183][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2023-04-10 19:03:58.598][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2023-04-10 19:03:59.085][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-04-10 19:03:59.087][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2023-04-10 19:03:59.100][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2023-04-10 19:03:59.103][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2023-04-10 19:03:59.104][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2023-04-10 19:03:59.106][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:03:59.107][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:03:59.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:59.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:59.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:59.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:59.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:59.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:59.116][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[2023-04-10 19:03:59.118][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:59.119][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:59.120][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.121][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:59.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:59.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.125][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:03:59.126][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:03:59.127][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.128][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.129][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:03:59.130][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:03:59.131][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.132][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.133][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:03:59.134][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:03:59.135][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.135][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.137][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:03:59.137][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:03:59.138][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.139][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.140][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:59.141][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:03:59.142][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.143][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.144][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:03:59.145][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:03:59.145][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.146][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.147][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:59.148][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:03:59.149][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.150][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.151][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:03:59.152][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:03:59.153][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.153][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.155][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:03:59.155][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:03:59.156][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.157][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.158][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:03:59.165][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:03:59.169][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.170][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:59.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:59.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:59.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:59.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:59.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:59.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:03:59.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:03:59.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:59.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:59.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:59.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:59.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:59.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:59.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:59.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:59.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:59.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:59.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:03:59.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:03:59.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:03:59.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:03:59.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:03:59.213][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2023-04-10 19:03:59.214][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-04-10 19:03:59.219][biodb::testThat]
biodb.INFO [2023-04-10 19:03:59.220][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-04-10 19:03:59.221][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:03:59.222][biodb::testThat]
biodb.DEBUG[2023-04-10 19:03:59.231][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2023-04-10 19:03:59.232][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2023-04-10 19:03:59.233][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2023-04-10 19:03:59.235][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2023-04-10 19:03:59.237][cch$loadFileContent] file.exist = [3]: "FALSE, TRUE, TRUE".
biodb.TRACE[2023-04-10 19:03:59.239][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[2023-04-10 19:03:59.240][conn$getEntryContent] 2 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:03:59.241][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-04-10 19:03:59.242][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2023-04-10 19:03:59.243][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2023-04-10 19:03:59.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:03:59.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:03:59.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:03:59.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:03:59.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:03:59.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:03:59.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:03:59.270][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2023-04-10 19:03:59.284][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-04-10 19:03:59.286][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-04-10 19:03:59.298][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2023-04-10 19:03:59.712][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2023-04-10 19:04:00.128][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-04-10 19:04:00.130][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2023-04-10 19:04:00.134][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.TRACE[2023-04-10 19:04:00.136][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml"
biodb.DEBUG[2023-04-10 19:04:00.138][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2023-04-10 19:04:00.148][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2023-04-10 19:04:00.150][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2023-04-10 19:04:00.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:00.153][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:00.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:00.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:00.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:00.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:00.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:04:00.162][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.163][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.164][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.165][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.169][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:04:00.170][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:04:00.171][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.171][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.172][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:04:00.173][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:04:00.174][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.175][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.176][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:04:00.177][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:04:00.178][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.179][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.180][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:04:00.181][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:04:00.182][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.183][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.184][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:00.185][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:00.186][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.186][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.187][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:04:00.188][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:04:00.189][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.190][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.191][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:00.192][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:00.193][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.194][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.195][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:04:00.196][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:04:00.197][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.198][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.199][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:04:00.200][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:04:00.201][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.202][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.203][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:04:00.204][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:04:00.204][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.205][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:04:00.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:00.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:00.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:00.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:00.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:00.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:00.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:04:00.244][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.245][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.246][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.247][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.252][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:04:00.253][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:04:00.254][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.255][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.256][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:04:00.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:04:00.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.259][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:04:00.260][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:04:00.261][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.262][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.263][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:04:00.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:04:00.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.267][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:04:00.268][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:04:00.269][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.270][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.271][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:04:00.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:04:00.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.274][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:04:00.275][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:04:00.276][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.277][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:04:00.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:04:00.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.282][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:00.282][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:00.283][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.284][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.285][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:00.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:00.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.295][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:04:00.296][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:04:00.297][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.298][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.300][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:04:00.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:04:00.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.303][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:00.304][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:00.305][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.306][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:00.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:00.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.311][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:04:00.312][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:04:00.312][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.313][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.314][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:04:00.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:04:00.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.318][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:04:00.319][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:04:00.320][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.320][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.322][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:04:00.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:04:00.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.325][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:04:00.326][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:04:00.327][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.328][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.329][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:04:00.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:04:00.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:04:00.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:00.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:00.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:00.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:00.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:00.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:00.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:04:00.367][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.368][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.369][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.370][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.375][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:04:00.375][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:04:00.376][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.377][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.378][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:04:00.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:04:00.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.382][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:04:00.383][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:04:00.384][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.385][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.386][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:04:00.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:04:00.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.390][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:04:00.390][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:04:00.391][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.392][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:04:00.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:04:00.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.397][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:04:00.398][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:04:00.399][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.400][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:04:00.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:04:00.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.405][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:00.406][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:00.407][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.407][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.409][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:00.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:00.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.412][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:04:00.413][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:04:00.414][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.415][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.416][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:04:00.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:04:00.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.419][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:00.420][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:00.421][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.422][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:00.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:00.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.427][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:04:00.428][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:04:00.428][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.429][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.430][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:04:00.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:04:00.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.441][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:04:00.442][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:04:00.443][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.444][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.445][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:04:00.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:04:00.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.448][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:04:00.449][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:04:00.450][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.451][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.452][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:04:00.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:04:00.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:04:00.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:00.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:00.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:00.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:00.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:04:00.511][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2023-04-10 19:04:00.512][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-04-10 19:04:00.513][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2023-04-10 19:04:00.523][biodb::testThat]
biodb.INFO [2023-04-10 19:04:00.524][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2023-04-10 19:04:00.525][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:04:00.525][biodb::testThat]
biodb.INFO [2023-04-10 19:04:00.544][biodb::testThat]
biodb.INFO [2023-04-10 19:04:00.545][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2023-04-10 19:04:00.546][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:04:00.547][biodb::testThat]
biodb.INFO [2023-04-10 19:04:00.553][biodb::testThat]
biodb.INFO [2023-04-10 19:04:00.554][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2023-04-10 19:04:00.555][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:04:00.556][biodb::testThat]
biodb.DEBUG[2023-04-10 19:04:00.558][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2023-04-10 19:04:00.561][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-04-10 19:04:00.562][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-04-10 19:04:00.564][private$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[2023-04-10 19:04:01.071][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[2023-04-10 19:04:01.636][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-04-10 19:04:01.638][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2023-04-10 19:04:01.643][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2023-04-10 19:04:01.664][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:04:01.665][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:04:01.666][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:01.667][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:01.667][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:01.669][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:01.670][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:01.671][ef$get] fields variable is a list.
biodb.INFO [2023-04-10 19:04:01.672][biodb::testThat]
biodb.INFO [2023-04-10 19:04:01.673][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2023-04-10 19:04:01.674][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:04:01.675][biodb::testThat]
biodb.ERROR[2023-04-10 19:04:01.686][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2023-04-10 19:04:01.699][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2023-04-10 19:04:01.707][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-04-10 19:04:01.709][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-04-10 19:04:01.710][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-04-10 19:04:01.710][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-04-10 19:04:01.711][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:01.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:01.713][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:01.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:01.714][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-04-10 19:04:01.723][biodb::testContext]
biodb.INFO [2023-04-10 19:04:01.724][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 19:04:01.725][biodb::testContext] Test context - Test conversions
biodb.INFO [2023-04-10 19:04:01.726][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 19:04:01.726][biodb::testContext]
biodb.INFO [2023-04-10 19:04:01.728][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.6.1.
biodb.DEBUG[2023-04-10 19:04:01.730][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2023-04-10 19:04:01.733][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 19:04:01.734][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-04-10 19:04:01.735][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-04-10 19:04:01.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.738][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-04-10 19:04:01.739][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-04-10 19:04:01.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.742][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-04-10 19:04:01.743][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-04-10 19:04:01.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.746][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-04-10 19:04:01.747][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-04-10 19:04:01.747][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-04-10 19:04:01.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.750][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[2023-04-10 19:04:01.750][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-04-10 19:04:01.751][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-04-10 19:04:01.752][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-04-10 19:04:01.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.755][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-04-10 19:04:01.756][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-04-10 19:04:01.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.759][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-04-10 19:04:01.760][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-04-10 19:04:01.761][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-04-10 19:04:01.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.764][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-04-10 19:04:01.765][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-04-10 19:04:01.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.767][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[2023-04-10 19:04:01.768][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-04-10 19:04:01.769][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-04-10 19:04:01.769][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-04-10 19:04:01.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.772][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-04-10 19:04:01.773][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-04-10 19:04:01.774][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-04-10 19:04:01.775][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-04-10 19:04:01.776][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-04-10 19:04:01.776][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-04-10 19:04:01.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.779][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-04-10 19:04:01.780][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-04-10 19:04:01.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.783][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-04-10 19:04:01.784][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-04-10 19:04:01.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.794][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-04-10 19:04:01.796][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-04-10 19:04:01.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.799][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-04-10 19:04:01.800][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-04-10 19:04:01.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.803][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-04-10 19:04:01.804][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-04-10 19:04:01.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.806][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-04-10 19:04:01.807][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-04-10 19:04:01.825][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-04-10 19:04:01.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.829][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-04-10 19:04:01.830][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-04-10 19:04:01.831][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-04-10 19:04:01.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.834][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-04-10 19:04:01.835][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:01.836][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-04-10 19:04:01.837][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.838][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:01.839][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.840][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:01.841][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:01.841][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:04:01.842][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 19:04:01.843][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:01.844][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.845][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-04-10 19:04:01.846][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:01.847][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.848][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.848][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 19:04:01.848][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 19:04:01.848][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 19:04:01.848][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 19:04:01.848][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 19:04:01.849][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:04:01.850][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:01.851][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:01.852][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:01.853][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:01.854][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:01.855][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:01.855][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.856][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:01.857][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:01.858][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:01.859][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.860][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-04-10 19:04:01.861][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:01.862][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 19:04:01.863][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.864][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:01.865][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.865][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:01.866][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:01.867][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:04:01.868][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 19:04:01.869][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:01.870][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.871][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-04-10 19:04:01.872][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:01.873][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.874][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.875][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 19:04:01.875][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 19:04:01.875][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 19:04:01.875][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 19:04:01.875][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 19:04:01.876][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:04:01.877][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:01.877][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:01.878][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:01.879][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:01.880][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:01.881][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:01.881][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.882][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:01.883][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:01.884][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:01.885][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.886][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-04-10 19:04:01.887][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.888][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-04-10 19:04:01.889][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.890][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:01.891][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.892][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:01.893][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:01.895][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:04:01.896][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 19:04:01.897][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:01.897][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:01.898][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-04-10 19:04:01.899][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:01.900][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.901][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.902][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.903][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:04:01.904][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:01.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:01.906][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:01.907][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:01.908][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:01.909][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:01.909][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.910][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:01.911][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:01.912][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:01.913][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.914][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-04-10 19:04:01.915][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.916][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 19:04:01.917][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.918][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:01.919][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.920][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:01.920][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:01.921][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:04:01.922][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 19:04:01.923][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:01.924][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:01.925][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-04-10 19:04:01.926][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:01.927][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.928][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:01.929][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.931][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:04:01.932][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:01.933][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:01.934][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:01.935][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:01.936][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:01.937][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:01.938][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.939][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:01.940][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:01.941][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:01.942][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:01.943][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 19:04:01.943][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:01.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:01.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:01.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:01.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:01.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:01.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.964][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[2023-04-10 19:04:01.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:01.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:01.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:01.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:01.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:01.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:01.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:01.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:01.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:01.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:01.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.986][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[2023-04-10 19:04:01.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:01.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:01.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:01.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:01.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:01.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:01.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:01.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:01.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:01.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.016][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[2023-04-10 19:04:02.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.021][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-04-10 19:04:02.022][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-04-10 19:04:02.023][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-04-10 19:04:02.024][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-04-10 19:04:02.025][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-04-10 19:04:02.026][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-04-10 19:04:02.028][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-04-10 19:04:02.029][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-04-10 19:04:02.030][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-04-10 19:04:02.031][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-04-10 19:04:02.032][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-04-10 19:04:02.033][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-04-10 19:04:02.034][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-04-10 19:04:02.036][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-04-10 19:04:02.037][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-04-10 19:04:02.038][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-04-10 19:04:02.039][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-04-10 19:04:02.040][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-04-10 19:04:02.041][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-04-10 19:04:02.042][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-04-10 19:04:02.044][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-04-10 19:04:02.045][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-04-10 19:04:02.046][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-04-10 19:04:02.047][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-04-10 19:04:02.048][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-04-10 19:04:02.049][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-04-10 19:04:02.050][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-04-10 19:04:02.052][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-04-10 19:04:02.053][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-04-10 19:04:02.054][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-04-10 19:04:02.055][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-04-10 19:04:02.056][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-04-10 19:04:02.057][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-04-10 19:04:02.059][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-04-10 19:04:02.060][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-04-10 19:04:02.061][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-04-10 19:04:02.062][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-04-10 19:04:02.063][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-04-10 19:04:02.064][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-04-10 19:04:02.065][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-04-10 19:04:02.067][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-04-10 19:04:02.068][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-04-10 19:04:02.069][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-04-10 19:04:02.070][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-04-10 19:04:02.071][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-04-10 19:04:02.072][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-04-10 19:04:02.073][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-04-10 19:04:02.075][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-04-10 19:04:02.076][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-04-10 19:04:02.077][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-04-10 19:04:02.078][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-04-10 19:04:02.085][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-04-10 19:04:02.087][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-04-10 19:04:02.088][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-04-10 19:04:02.089][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-04-10 19:04:02.090][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-04-10 19:04:02.091][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-04-10 19:04:02.092][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-04-10 19:04:02.094][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-04-10 19:04:02.095][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-04-10 19:04:02.096][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-04-10 19:04:02.097][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-04-10 19:04:02.098][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-04-10 19:04:02.099][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-04-10 19:04:02.100][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-04-10 19:04:02.101][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-04-10 19:04:02.102][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-04-10 19:04:02.104][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-04-10 19:04:02.105][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-04-10 19:04:02.106][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-04-10 19:04:02.107][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-04-10 19:04:02.108][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-04-10 19:04:02.109][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-04-10 19:04:02.111][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-04-10 19:04:02.112][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-04-10 19:04:02.113][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-04-10 19:04:02.114][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-04-10 19:04:02.115][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-04-10 19:04:02.116][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-04-10 19:04:02.117][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-04-10 19:04:02.119][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-04-10 19:04:02.120][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-04-10 19:04:02.121][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-04-10 19:04:02.122][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-04-10 19:04:02.124][initialize] This is biodb version 1.6.1.
biodb.DEBUG[2023-04-10 19:04:02.124][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 19:04:02.125][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.127][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.127][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[2023-04-10 19:04:02.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.133][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[2023-04-10 19:04:02.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.143][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[2023-04-10 19:04:02.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.185][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[2023-04-10 19:04:02.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.201][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[2023-04-10 19:04:02.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.206][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[2023-04-10 19:04:02.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.223][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[2023-04-10 19:04:02.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:02.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.232][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-04-10 19:04:02.234][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-04-10 19:04:02.236][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:02.238][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-04-10 19:04:02.239][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:02.240][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:02.242][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:02.243][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:02.244][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:02.245][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-04-10 19:04:02.246][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-04-10 19:04:02.248][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:02.249][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:02.250][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-04-10 19:04:02.251][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:02.253][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-04-10 19:04:02.253][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-04-10 19:04:02.253][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-04-10 19:04:02.253][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-04-10 19:04:02.253][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-04-10 19:04:02.253][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-04-10 19:04:02.253][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-04-10 19:04:02.253][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-04-10 19:04:02.253][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-04-10 19:04:02.253][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-04-10 19:04:02.253][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-04-10 19:04:02.254][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:02.256][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 19:04:02.256][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 19:04:02.256][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 19:04:02.257][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-04-10 19:04:02.258][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:02.259][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:02.261][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:02.262][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:02.263][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:02.264][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:02.266][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-04-10 19:04:02.266][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-04-10 19:04:02.267][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:02.269][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:02.270][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:02.271][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-04-10 19:04:02.271][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-04-10 19:04:02.273][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-04-10 19:04:02.275][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-04-10 19:04:02.277][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-04-10 19:04:02.279][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-04-10 19:04:02.281][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-04-10 19:04:02.283][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-04-10 19:04:02.287][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-04-10 19:04:02.289][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-04-10 19:04:02.290][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-04-10 19:04:02.292][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-04-10 19:04:02.294][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-04-10 19:04:02.294][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-04-10 19:04:02.296][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-04-10 19:04:02.297][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-04-10 19:04:02.298][biodb::testThat]
biodb.INFO [2023-04-10 19:04:02.300][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2023-04-10 19:04:02.301][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:04:02.302][biodb::testThat]
biodb.DEBUG[2023-04-10 19:04:02.306][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-04-10 19:04:02.309][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:04:02.310][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-04-10 19:04:02.311][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:04:02.312][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-04-10 19:04:02.315][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[2023-04-10 19:04:02.318][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:04:02.319][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-04-10 19:04:02.321][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:04:02.322][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-04-10 19:04:02.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:02.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.334][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[2023-04-10 19:04:02.337][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[2023-04-10 19:04:02.340][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:04:02.342][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-04-10 19:04:02.344][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:04:02.345][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-04-10 19:04:02.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:02.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.378][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[2023-04-10 19:04:02.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:02.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.425][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[2023-04-10 19:04:02.430][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:04:02.432][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-04-10 19:04:02.434][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:04:02.435][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-04-10 19:04:02.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:02.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.446][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.452][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[2023-04-10 19:04:02.456][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:04:02.458][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-04-10 19:04:02.459][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:04:02.461][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-04-10 19:04:02.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:02.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:02.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.494][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[2023-04-10 19:04:02.498][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:04:02.500][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2023-04-10 19:04:02.502][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:04:02.504][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2023-04-10 19:04:02.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:02.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.520][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[2023-04-10 19:04:02.524][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:04:02.526][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2023-04-10 19:04:02.528][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:04:02.530][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2023-04-10 19:04:02.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:02.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.541][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:02.546][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[2023-04-10 19:04:02.551][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:04:02.553][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2023-04-10 19:04:02.554][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:04:02.561][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2023-04-10 19:04:02.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:02.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:02.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:02.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:02.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:02.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:02.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-04-10 19:04:02.580][biodb::testThat]
biodb.INFO [2023-04-10 19:04:02.582][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2023-04-10 19:04:02.583][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:04:02.584][biodb::testThat]
biodb.DEBUG[2023-04-10 19:04:02.589][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[2023-04-10 19:04:02.593][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-04-10 19:04:02.595][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-04-10 19:04:02.597][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2023-04-10 19:04:03.045][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2023-04-10 19:04:03.465][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-04-10 19:04:03.468][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2023-04-10 19:04:03.475][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2023-04-10 19:04:03.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:03.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:03.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:03.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:03.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:03.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:03.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:03.497][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-04-10 19:04:03.696][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-04-10 19:04:03.698][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-04-10 19:04:03.700][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2023-04-10 19:04:04.132][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2023-04-10 19:04:04.545][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-04-10 19:04:04.547][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2023-04-10 19:04:04.551][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2023-04-10 19:04:04.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:04.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:04.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:04.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.564][FUN] Functions in observer BiodbConfig: [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 [2023-04-10 19:04:04.566][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-04-10 19:04:04.568][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-04-10 19:04:04.569][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-04-10 19:04:04.570][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-04-10 19:04:04.571][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:04.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:04.573][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.576][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-04-10 19:04:04.582][biodb::testContext]
biodb.INFO [2023-04-10 19:04:04.584][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 19:04:04.585][biodb::testContext] Test context - Test web services
biodb.INFO [2023-04-10 19:04:04.586][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 19:04:04.588][biodb::testContext]
biodb.INFO [2023-04-10 19:04:04.590][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.6.1.
biodb.DEBUG[2023-04-10 19:04:04.593][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2023-04-10 19:04:04.597][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 19:04:04.598][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-04-10 19:04:04.599][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-04-10 19:04:04.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.602][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-04-10 19:04:04.603][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-04-10 19:04:04.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.606][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-04-10 19:04:04.607][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-04-10 19:04:04.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.610][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-04-10 19:04:04.611][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-04-10 19:04:04.612][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-04-10 19:04:04.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.615][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-04-10 19:04:04.616][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-04-10 19:04:04.617][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-04-10 19:04:04.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.620][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-04-10 19:04:04.621][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-04-10 19:04:04.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.624][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-04-10 19:04:04.624][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-04-10 19:04:04.625][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-04-10 19:04:04.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.628][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-04-10 19:04:04.629][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-04-10 19:04:04.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.631][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[2023-04-10 19:04:04.632][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-04-10 19:04:04.633][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-04-10 19:04:04.634][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-04-10 19:04:04.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.637][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-04-10 19:04:04.638][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-04-10 19:04:04.639][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-04-10 19:04:04.641][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-04-10 19:04:04.642][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-04-10 19:04:04.643][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-04-10 19:04:04.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.647][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[2023-04-10 19:04:04.648][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-04-10 19:04:04.649][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-04-10 19:04:04.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.653][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-04-10 19:04:04.654][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-04-10 19:04:04.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.657][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-04-10 19:04:04.658][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-04-10 19:04:04.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.661][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-04-10 19:04:04.661][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-04-10 19:04:04.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.664][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.DEBUG[2023-04-10 19:04:04.664][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-04-10 19:04:04.665][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-04-10 19:04:04.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.668][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-04-10 19:04:04.669][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-04-10 19:04:04.688][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-04-10 19:04:04.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.691][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-04-10 19:04:04.692][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-04-10 19:04:04.693][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-04-10 19:04:04.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.696][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-04-10 19:04:04.698][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:04.699][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-04-10 19:04:04.700][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.701][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:04.702][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.703][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:04.704][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:04.704][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:04:04.705][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 19:04:04.706][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:04.707][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.708][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-04-10 19:04:04.709][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:04.710][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.711][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.712][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 19:04:04.712][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 19:04:04.712][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 19:04:04.712][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 19:04:04.712][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 19:04:04.713][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:04:04.714][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:04.714][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:04.715][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:04.716][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:04.717][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:04.718][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:04.719][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.720][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:04.720][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:04.721][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:04.722][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.724][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-04-10 19:04:04.727][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:04.728][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 19:04:04.729][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.731][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:04.732][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.733][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:04.735][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:04.736][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:04:04.738][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 19:04:04.739][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:04.740][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.741][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-04-10 19:04:04.742][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:04.743][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.744][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.746][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 19:04:04.746][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 19:04:04.746][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 19:04:04.746][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 19:04:04.746][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 19:04:04.747][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:04:04.749][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:04.749][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:04.750][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:04.751][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:04.752][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:04.753][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:04.754][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.755][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:04.756][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:04.757][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:04.758][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.760][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-04-10 19:04:04.762][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.764][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-04-10 19:04:04.765][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.766][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:04.767][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.768][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:04.769][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:04.770][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:04:04.771][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 19:04:04.772][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:04.773][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:04.775][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-04-10 19:04:04.776][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:04.777][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.778][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.779][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.780][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:04:04.781][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:04.782][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:04.783][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:04.784][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:04.785][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:04.785][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:04.786][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.787][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:04.788][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:04.789][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:04.790][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.792][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-04-10 19:04:04.794][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.796][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 19:04:04.797][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.798][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:04.800][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.801][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:04.803][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:04.804][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:04:04.805][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 19:04:04.807][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:04.808][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:04.808][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-04-10 19:04:04.809][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:04.810][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.811][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:04.812][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.813][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:04:04.814][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:04.815][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:04.815][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:04.816][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:04.817][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:04.818][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:04.819][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.820][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:04.821][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:04.822][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:04.823][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:04.824][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 19:04:04.825][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.830][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.DEBUG[2023-04-10 19:04:04.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.838][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[2023-04-10 19:04:04.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.842][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[2023-04-10 19:04:04.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.858][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[2023-04-10 19:04:04.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:04.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:04.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:04.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:04.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:04.900][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-04-10 19:04:04.901][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-04-10 19:04:04.903][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-04-10 19:04:04.904][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-04-10 19:04:04.905][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-04-10 19:04:04.906][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-04-10 19:04:04.907][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-04-10 19:04:04.908][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-04-10 19:04:04.909][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-04-10 19:04:04.910][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-04-10 19:04:04.911][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-04-10 19:04:04.912][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-04-10 19:04:04.914][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-04-10 19:04:04.915][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-04-10 19:04:04.916][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-04-10 19:04:04.917][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-04-10 19:04:04.918][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-04-10 19:04:04.919][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-04-10 19:04:04.920][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-04-10 19:04:04.921][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-04-10 19:04:04.922][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-04-10 19:04:04.923][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-04-10 19:04:04.924][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-04-10 19:04:04.926][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-04-10 19:04:04.927][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-04-10 19:04:04.928][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-04-10 19:04:04.929][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-04-10 19:04:04.930][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-04-10 19:04:04.931][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-04-10 19:04:04.932][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-04-10 19:04:04.933][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-04-10 19:04:04.934][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-04-10 19:04:04.935][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-04-10 19:04:04.936][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-04-10 19:04:04.937][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-04-10 19:04:04.939][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-04-10 19:04:04.940][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-04-10 19:04:04.942][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-04-10 19:04:04.944][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-04-10 19:04:04.945][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-04-10 19:04:04.947][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-04-10 19:04:04.948][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-04-10 19:04:04.950][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-04-10 19:04:04.952][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-04-10 19:04:04.954][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-04-10 19:04:04.956][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-04-10 19:04:04.957][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-04-10 19:04:04.958][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-04-10 19:04:04.959][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-04-10 19:04:04.960][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-04-10 19:04:04.961][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-04-10 19:04:04.963][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-04-10 19:04:04.964][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-04-10 19:04:04.966][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-04-10 19:04:04.968][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-04-10 19:04:04.970][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-04-10 19:04:04.971][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-04-10 19:04:04.973][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-04-10 19:04:04.974][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-04-10 19:04:04.976][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-04-10 19:04:04.977][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-04-10 19:04:04.978][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-04-10 19:04:04.980][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-04-10 19:04:04.982][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-04-10 19:04:04.983][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-04-10 19:04:04.985][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-04-10 19:04:04.986][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-04-10 19:04:04.987][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-04-10 19:04:04.988][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-04-10 19:04:04.990][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-04-10 19:04:04.991][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-04-10 19:04:04.992][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-04-10 19:04:04.993][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-04-10 19:04:04.994][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-04-10 19:04:04.995][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-04-10 19:04:04.996][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-04-10 19:04:04.998][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-04-10 19:04:04.999][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-04-10 19:04:05.000][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-04-10 19:04:05.001][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-04-10 19:04:05.002][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-04-10 19:04:05.003][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-04-10 19:04:05.004][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-04-10 19:04:05.006][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-04-10 19:04:05.007][initialize] This is biodb version 1.6.1.
biodb.DEBUG[2023-04-10 19:04:05.008][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 19:04:05.008][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.010][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:05.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.016][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[2023-04-10 19:04:05.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.021][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[2023-04-10 19:04:05.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:05.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:05.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.036][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[2023-04-10 19:04:05.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.041][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[2023-04-10 19:04:05.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:05.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:05.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:05.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.062][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[2023-04-10 19:04:05.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:05.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:05.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.077][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[2023-04-10 19:04:05.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.083][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.DEBUG[2023-04-10 19:04:05.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:05.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:05.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:05.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:05.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:05.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:05.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:05.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:05.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:05.107][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-04-10 19:04:05.109][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-04-10 19:04:05.112][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:05.113][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-04-10 19:04:05.115][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:05.116][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:05.118][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:05.119][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:05.121][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:05.122][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-04-10 19:04:05.123][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-04-10 19:04:05.125][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:05.126][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:05.127][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-04-10 19:04:05.129][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:05.130][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-04-10 19:04:05.130][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-04-10 19:04:05.130][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-04-10 19:04:05.130][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-04-10 19:04:05.130][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-04-10 19:04:05.130][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-04-10 19:04:05.130][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-04-10 19:04:05.130][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-04-10 19:04:05.130][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-04-10 19:04:05.130][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-04-10 19:04:05.130][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-04-10 19:04:05.132][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:05.133][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 19:04:05.133][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 19:04:05.133][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 19:04:05.135][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-04-10 19:04:05.136][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:05.137][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:05.139][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:05.140][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:05.141][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:05.142][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:05.144][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-04-10 19:04:05.144][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-04-10 19:04:05.145][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:05.146][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:05.148][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:05.149][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-04-10 19:04:05.149][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-04-10 19:04:05.160][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-04-10 19:04:05.162][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-04-10 19:04:05.164][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-04-10 19:04:05.165][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-04-10 19:04:05.166][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-04-10 19:04:05.168][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-04-10 19:04:05.172][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-04-10 19:04:05.173][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-04-10 19:04:05.174][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-04-10 19:04:05.176][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-04-10 19:04:05.178][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-04-10 19:04:05.179][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-04-10 19:04:05.181][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-04-10 19:04:05.182][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-04-10 19:04:05.184][biodb::testThat]
biodb.INFO [2023-04-10 19:04:05.185][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2023-04-10 19:04:05.186][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:04:05.187][biodb::testThat]
biodb.DEBUG[2023-04-10 19:04:05.192][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-04-10 19:04:05.197][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:04:05.199][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-04-10 19:04:05.201][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:04:05.203][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-04-10 19:04:05.207][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[2023-04-10 19:04:05.212][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-04-10 19:04:05.214][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-04-10 19:04:05.216][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2023-04-10 19:04:05.634][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2023-04-10 19:04:09.052][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-04-10 19:04:09.054][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2023-04-10 19:04:09.061][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2023-04-10 19:04:09.066][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-04-10 19:04:09.068][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-04-10 19:04:09.070][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-04-10 19:04:09.071][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-04-10 19:04:09.072][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.074][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.075][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-04-10 19:04:09.082][biodb::testContext]
biodb.INFO [2023-04-10 19:04:09.083][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 19:04:09.084][biodb::testContext] Test context - Non regression tests
biodb.INFO [2023-04-10 19:04:09.085][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 19:04:09.086][biodb::testContext]
biodb.INFO [2023-04-10 19:04:09.088][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.6.1.
biodb.DEBUG[2023-04-10 19:04:09.091][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2023-04-10 19:04:09.096][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 19:04:09.098][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-04-10 19:04:09.099][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-04-10 19:04:09.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.102][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-04-10 19:04:09.104][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-04-10 19:04:09.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.108][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-04-10 19:04:09.109][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-04-10 19:04:09.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.112][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".
biodb.DEBUG[2023-04-10 19:04:09.113][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-04-10 19:04:09.115][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-04-10 19:04:09.116][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-04-10 19:04:09.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.121][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-04-10 19:04:09.122][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-04-10 19:04:09.123][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-04-10 19:04:09.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.127][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[2023-04-10 19:04:09.128][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-04-10 19:04:09.129][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-04-10 19:04:09.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.134][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-04-10 19:04:09.135][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-04-10 19:04:09.136][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-04-10 19:04:09.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.141][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-04-10 19:04:09.142][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-04-10 19:04:09.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.147][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-04-10 19:04:09.148][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-04-10 19:04:09.150][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-04-10 19:04:09.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.154][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-04-10 19:04:09.155][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-04-10 19:04:09.157][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-04-10 19:04:09.158][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-04-10 19:04:09.159][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-04-10 19:04:09.161][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-04-10 19:04:09.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.165][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-04-10 19:04:09.166][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-04-10 19:04:09.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.171][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-04-10 19:04:09.172][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-04-10 19:04:09.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.177][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-04-10 19:04:09.178][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-04-10 19:04:09.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.181][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[2023-04-10 19:04:09.182][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-04-10 19:04:09.184][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-04-10 19:04:09.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.188][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-04-10 19:04:09.189][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-04-10 19:04:09.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.194][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-04-10 19:04:09.195][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-04-10 19:04:09.223][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-04-10 19:04:09.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.228][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-04-10 19:04:09.230][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-04-10 19:04:09.231][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-04-10 19:04:09.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.236][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-04-10 19:04:09.238][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.239][self$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[2023-04-10 19:04:09.241][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.242][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:09.243][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.245][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.245][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.247][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.248][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 19:04:09.249][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:09.249][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.250][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-04-10 19:04:09.251][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:09.252][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.253][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.253][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 19:04:09.253][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 19:04:09.253][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 19:04:09.253][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 19:04:09.253][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 19:04:09.254][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:04:09.255][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:09.256][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:09.258][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:09.259][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:09.260][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:09.261][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.263][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.264][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:09.265][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:09.266][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.267][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.269][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-04-10 19:04:09.271][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.272][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 19:04:09.274][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.275][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:09.277][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.278][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.279][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.281][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.282][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 19:04:09.283][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:09.284][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.286][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-04-10 19:04:09.287][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:09.288][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.289][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.290][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 19:04:09.290][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 19:04:09.290][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 19:04:09.290][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 19:04:09.290][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 19:04:09.292][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:04:09.293][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:09.294][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:09.295][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:09.297][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:09.298][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:09.299][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.300][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.301][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:09.302][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:09.303][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.305][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.306][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-04-10 19:04:09.308][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.310][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-04-10 19:04:09.311][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.312][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:09.313][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.315][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.316][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.317][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.318][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 19:04:09.320][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:09.321][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.322][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-04-10 19:04:09.323][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:09.324][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.325][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.327][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.328][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:04:09.329][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:09.330][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:09.331][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:09.333][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:09.334][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:09.335][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.336][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.337][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:09.339][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:09.340][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.342][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.343][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-04-10 19:04:09.345][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.347][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 19:04:09.348][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.349][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:09.351][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.352][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.353][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.354][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.356][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 19:04:09.357][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:09.358][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.360][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-04-10 19:04:09.361][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:09.362][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.363][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.365][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.366][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 19:04:09.367][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:09.369][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:09.370][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:09.371][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:09.372][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:09.374][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.375][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.376][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:09.377][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:09.378][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.380][self$setPropertyValue]
biodb.DEBUG[2023-04-10 19:04:09.381][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 19:04:09.383][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.418][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[2023-04-10 19:04:09.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.424][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[2023-04-10 19:04:09.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.442][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[2023-04-10 19:04:09.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.446][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[2023-04-10 19:04:09.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.451][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[2023-04-10 19:04:09.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.468][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[2023-04-10 19:04:09.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.478][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-04-10 19:04:09.479][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-04-10 19:04:09.480][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-04-10 19:04:09.481][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-04-10 19:04:09.483][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-04-10 19:04:09.484][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-04-10 19:04:09.485][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-04-10 19:04:09.486][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-04-10 19:04:09.487][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-04-10 19:04:09.488][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-04-10 19:04:09.489][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-04-10 19:04:09.490][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-04-10 19:04:09.491][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-04-10 19:04:09.492][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-04-10 19:04:09.494][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-04-10 19:04:09.495][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-04-10 19:04:09.496][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-04-10 19:04:09.497][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-04-10 19:04:09.498][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-04-10 19:04:09.499][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-04-10 19:04:09.500][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-04-10 19:04:09.501][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-04-10 19:04:09.502][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-04-10 19:04:09.503][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-04-10 19:04:09.504][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-04-10 19:04:09.505][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-04-10 19:04:09.507][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-04-10 19:04:09.508][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-04-10 19:04:09.509][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-04-10 19:04:09.510][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-04-10 19:04:09.511][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-04-10 19:04:09.512][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-04-10 19:04:09.513][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-04-10 19:04:09.514][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-04-10 19:04:09.515][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-04-10 19:04:09.516][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-04-10 19:04:09.517][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-04-10 19:04:09.519][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-04-10 19:04:09.520][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-04-10 19:04:09.521][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-04-10 19:04:09.522][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-04-10 19:04:09.523][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-04-10 19:04:09.524][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-04-10 19:04:09.525][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-04-10 19:04:09.526][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-04-10 19:04:09.527][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-04-10 19:04:09.529][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-04-10 19:04:09.530][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-04-10 19:04:09.531][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-04-10 19:04:09.532][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-04-10 19:04:09.533][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-04-10 19:04:09.534][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-04-10 19:04:09.535][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-04-10 19:04:09.536][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-04-10 19:04:09.537][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-04-10 19:04:09.539][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-04-10 19:04:09.540][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-04-10 19:04:09.541][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-04-10 19:04:09.542][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-04-10 19:04:09.543][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-04-10 19:04:09.544][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-04-10 19:04:09.545][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-04-10 19:04:09.546][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-04-10 19:04:09.547][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-04-10 19:04:09.548][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-04-10 19:04:09.550][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-04-10 19:04:09.551][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-04-10 19:04:09.552][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-04-10 19:04:09.553][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-04-10 19:04:09.554][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-04-10 19:04:09.555][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-04-10 19:04:09.556][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-04-10 19:04:09.557][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-04-10 19:04:09.558][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-04-10 19:04:09.559][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-04-10 19:04:09.560][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-04-10 19:04:09.562][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-04-10 19:04:09.563][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-04-10 19:04:09.564][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-04-10 19:04:09.565][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-04-10 19:04:09.566][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-04-10 19:04:09.567][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-04-10 19:04:09.568][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-04-10 19:04:09.569][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-04-10 19:04:09.571][initialize] This is biodb version 1.6.1.
biodb.DEBUG[2023-04-10 19:04:09.572][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 19:04:09.572][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.574][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.574][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[2023-04-10 19:04:09.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.629][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[2023-04-10 19:04:09.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.655][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[2023-04-10 19:04:09.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 19:04:09.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.682][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2023-04-10 19:04:09.684][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2023-04-10 19:04:09.686][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.688][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.689][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.690][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 19:04:09.691][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.692][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.693][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.694][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2023-04-10 19:04:09.695][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-04-10 19:04:09.696][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 19:04:09.698][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.699][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2023-04-10 19:04:09.700][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 19:04:09.701][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2023-04-10 19:04:09.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2023-04-10 19:04:09.701][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2023-04-10 19:04:09.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2023-04-10 19:04:09.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2023-04-10 19:04:09.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2023-04-10 19:04:09.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2023-04-10 19:04:09.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2023-04-10 19:04:09.701][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2023-04-10 19:04:09.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2023-04-10 19:04:09.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2023-04-10 19:04:09.702][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-04-10 19:04:09.703][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 19:04:09.703][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 19:04:09.703][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 19:04:09.705][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-04-10 19:04:09.705][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:09.706][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:09.707][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 19:04:09.708][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 19:04:09.708][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 19:04:09.709][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 19:04:09.710][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-04-10 19:04:09.710][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2023-04-10 19:04:09.711][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 19:04:09.711][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 19:04:09.712][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-04-10 19:04:09.713][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2023-04-10 19:04:09.713][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2023-04-10 19:04:09.714][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-04-10 19:04:09.715][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-04-10 19:04:09.717][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2023-04-10 19:04:09.718][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-04-10 19:04:09.720][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-04-10 19:04:09.722][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-04-10 19:04:09.725][super$initialize] Initialize connector chebi.
biodb.DEBUG[2023-04-10 19:04:09.726][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2023-04-10 19:04:09.727][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2023-04-10 19:04:09.729][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2023-04-10 19:04:09.730][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-04-10 19:04:09.731][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-04-10 19:04:09.732][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2023-04-10 19:04:09.733][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2023-04-10 19:04:09.735][biodb::testThat]
biodb.INFO [2023-04-10 19:04:09.735][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2023-04-10 19:04:09.737][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 19:04:09.737][biodb::testThat]
biodb.DEBUG[2023-04-10 19:04:09.741][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2023-04-10 19:04:09.745][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:04:09.747][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2023-04-10 19:04:09.748][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:04:09.750][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2023-04-10 19:04:09.755][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2023-04-10 19:04:09.759][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 19:04:09.760][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2023-04-10 19:04:09.762][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 19:04:09.763][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2023-04-10 19:04:09.766][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2023-04-10 19:04:09.767][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 19:04:09.769][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2023-04-10 19:04:09.770][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-04-10 19:04:09.771][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-04-10 19:04:09.772][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 19:04:09.773][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2023-04-10 19:04:09.774][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2023-04-10 19:04:09.775][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2023-04-10 19:04:09.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:09.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:09.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:09.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:09.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:09.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:09.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 19:04:09.790][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2023-04-10 19:04:09.794][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-04-10 19:04:09.795][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-04-10 19:04:09.796][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2023-04-10 19:04:10.228][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2023-04-10 19:04:11.030][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2023-04-10 19:04:11.032][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2023-04-10 19:04:11.036][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2023-04-10 19:04:11.040][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2023-04-10 19:04:11.042][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2023-04-10 19:04:11.043][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2023-04-10 19:04:11.044][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2023-04-10 19:04:11.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 19:04:11.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:11.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:11.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:11.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:11.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:11.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 19:04:11.059][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:11.060][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:11.060][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.061][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:11.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:11.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.067][ef$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:04:11.068][ef$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:04:11.069][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.071][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.072][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2023-04-10 19:04:11.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2023-04-10 19:04:11.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.076][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:04:11.077][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:04:11.077][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.078][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.079][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 19:04:11.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 19:04:11.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.084][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-04-10 19:04:11.084][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-04-10 19:04:11.085][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.086][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.087][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-04-10 19:04:11.088][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-04-10 19:04:11.089][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.090][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.091][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:11.092][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:11.093][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.094][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.095][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:11.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 19:04:11.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.099][ef$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:04:11.100][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:04:11.102][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.103][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.104][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2023-04-10 19:04:11.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 19:04:11.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.109][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:11.110][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:11.111][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.112][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:11.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 19:04:11.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.118][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:04:11.119][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:04:11.120][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.120][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.122][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 19:04:11.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 19:04:11.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.125][ef$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:04:11.126][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:04:11.127][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.128][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.129][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2023-04-10 19:04:11.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2023-04-10 19:04:11.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.133][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:04:11.134][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:04:11.134][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.135][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.137][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-04-10 19:04:11.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-04-10 19:04:11.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:04:11.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:04:11.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:04:11.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:04:11.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:11.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:11.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 19:04:11.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 19:04:11.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:11.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:11.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:11.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:11.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:11.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:11.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:11.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:11.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:11.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:11.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 19:04:11.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 19:04:11.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 19:04:11.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 19:04:11.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 19:04:11.176][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2023-04-10 19:04:11.177][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-04-10 19:04:11.178][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2023-04-10 19:04:11.179][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2023-04-10 19:04:11.179][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-04-10 19:04:11.180][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 19:04:11.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 19:04:11.182][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 19:04:11.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 19:04:11.183][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 19:04:11.184][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 343 ]
>
> proc.time()
user system elapsed
15.165 0.648 28.336
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 2.277 | 0.705 | 5.491 | |
| ChebiEntry | 0.401 | 0.016 | 0.428 | |